# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=404

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

**Page:** 405

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## [CT Resampling and Registration order](https://discourse.slicer.org/t/ct-resampling-and-registration-order/4840)

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**Author:** [@ZA\_S](https://discourse.slicer.org/u/ZA_S)\
**Replies:** 2\
**Last updated:** [November 23, 2018, 11:19am UTC](https://discourse.slicer.org/t/ct-resampling-and-registration-order/4840 "2018-11-23T11:19:29Z")

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Hello guys, I have non-contrast 3D CT images. I would like to resample them to 1mm and perform registration. In what order it should be; resampling then registration, or firstly registration then resampling? Thanks

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## [How to segment blood vessels from bones?](https://discourse.slicer.org/t/how-to-segment-blood-vessels-from-bones/4848)

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**Author:** [@sglee2357](https://discourse.slicer.org/u/sglee2357)\
**Replies:** 9\
**Last updated:** [November 23, 2018, 8:06am UTC](https://discourse.slicer.org/t/how-to-segment-blood-vessels-from-bones/4848 "2018-11-23T08:06:52Z")

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Hi, I’m quite new to this field so I kinda lost in here. I’m trying to do blood vessel segmentation and center-line extraction from 3D CT images (DICOM format). (chest, abdomen, leg CTs usually) So far, below is what …

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## [Export images of MultiVolumeExplorer](https://discourse.slicer.org/t/export-images-of-multivolumeexplorer/4805)

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**Author:** [@riep](https://discourse.slicer.org/u/riep)\
**Replies:** 14\
**Last updated:** [November 23, 2018, 8:02am UTC](https://discourse.slicer.org/t/export-images-of-multivolumeexplorer/4805 "2018-11-23T08:02:54Z")

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Dear, everyone, I have looked at several post on this topic but I have not find something that is working for me. What I am trying to do is to reformat a stack of 10 cine slices into a slightly tilted. To be more schem…

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## [How to cut cardiac 3d model to see inside of heart](https://discourse.slicer.org/t/how-to-cut-cardiac-3d-model-to-see-inside-of-heart/4704)

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**Author:** [@sarvpriya1985](https://discourse.slicer.org/u/sarvpriya1985)\
**Replies:** 12\
**Last updated:** [November 23, 2018, 4:21am UTC](https://discourse.slicer.org/t/how-to-cut-cardiac-3d-model-to-see-inside-of-heart/4704 "2018-11-23T04:21:13Z")

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Hi, Would anyone one know how to place cuts after building a 3d model of heart. I want to apply cuts through right atrium and right ventricle to see inside of heart via right ventricle. I am attaching a picture that I w…

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## [loadable Module not loading .json file into combo box correctly](https://discourse.slicer.org/t/loadable-module-not-loading-json-file-into-combo-box-correctly/4856)

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**Author:** [@Marcos\_Soares](https://discourse.slicer.org/u/Marcos_Soares)\
**Replies:** 1\
**Last updated:** [November 23, 2018, 3:48am UTC](https://discourse.slicer.org/t/loadable-module-not-loading-json-file-into-combo-box-correctly/4856 "2018-11-23T03:48:07Z")

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Operating system: Mint 18 Slicer version: 4.8 Expected behavior: A list of data in the combo box should be exhibited Actual behavior: Nothing is displayed. Hi everyone, i am new here and i am having a problem third p…

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## [Is vtkGUISupportQtOpenGL available in 8.2.0 with VTK\_RENDERING\_BACKEND=OpenGL2 ?](https://discourse.slicer.org/t/is-vtkguisupportqtopengl-available-in-8-2-0-with-vtk-rendering-backend-opengl2/4854)

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**Author:** [@yurivict](https://discourse.slicer.org/u/yurivict)\
**Replies:** 5\
**Last updated:** [November 23, 2018, 3:01am UTC](https://discourse.slicer.org/t/is-vtkguisupportqtopengl-available-in-8-2-0-with-vtk-rendering-backend-opengl2/4854 "2018-11-23T03:01:56Z")

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I couldn’t build the 3dslicer project because 8.1.2 only has vtkGUISupportQtOpenGL when VTK\_RENDERING\_BACKEND=OpenGL, which is limiting in other respects. Also see here: http://vtk.1045678.n5.nabble.com/Find-reason-for-…

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## [Accuracy assessment of stl model](https://discourse.slicer.org/t/accuracy-assessment-of-stl-model/4688)

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**Author:** [@Doaa](https://discourse.slicer.org/u/Doaa)\
**Replies:** 0\
**Last updated:** [November 8, 2018, 6:13pm UTC](https://discourse.slicer.org/t/accuracy-assessment-of-stl-model/4688 "2018-11-08T18:13:46Z")

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Hello I’m new user to 3D slicer . How can i know the accuracy of stl model from ct scan data in 3d slicer?

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## [Changing orientation of slices in DICOM files](https://discourse.slicer.org/t/changing-orientation-of-slices-in-dicom-files/4820)

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**Author:** [@lambrosone](https://discourse.slicer.org/u/lambrosone)\
**Replies:** 6\
**Last updated:** [November 21, 2018, 12:20am UTC](https://discourse.slicer.org/t/changing-orientation-of-slices-in-dicom-files/4820 "2018-11-21T00:20:16Z")

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Operating system:win 10 Slicer version: 4.8 Expected behavior: Actual behavior: Can slicer change the orientation of the 3 cardinal views of the dicom data, IE say to change the orientation of the views? Say I want …

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## [Model doesn't show colors of scalars](https://discourse.slicer.org/t/model-doesnt-show-colors-of-scalars/4824)

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**Author:** [@ghnguyen](https://discourse.slicer.org/u/ghnguyen)\
**Replies:** 1\
**Last updated:** [November 20, 2018, 11:57pm UTC](https://discourse.slicer.org/t/model-doesnt-show-colors-of-scalars/4824 "2018-11-20T23:57:50Z")

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Hi, I am trying to a custom loadable module in Python that has a QComboBox that shows the scalars similar to the one in the Models module. The item list and combo box work fine but the colors are not updated correctly o…

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## [Grow from seeds limited to an area only](https://discourse.slicer.org/t/grow-from-seeds-limited-to-an-area-only/4825)

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**Author:** [@drmaestro](https://discourse.slicer.org/u/drmaestro)\
**Replies:** 3\
**Last updated:** [November 20, 2018, 11:32pm UTC](https://discourse.slicer.org/t/grow-from-seeds-limited-to-an-area-only/4825 "2018-11-20T23:32:22Z")

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Operating system: Windows 7 Slicer version:4.10 Expected behavior: Grow from seed is applied to entire image Actual behavior: Grow from seed is applied to a box sized ROI Hi, I am trying to use “grow from seed” to s…

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## [Segmentation fault: 11 with DWIConvert](https://discourse.slicer.org/t/segmentation-fault-11-with-dwiconvert/3989)

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**Author:** [@alca](https://discourse.slicer.org/u/alca)\
**Replies:** 10\
**Last updated:** [November 20, 2018, 6:52pm UTC](https://discourse.slicer.org/t/segmentation-fault-11-with-dwiconvert/3989 "2018-11-20T18:52:54Z")

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Dear Slicer experts, I am trying to use DTIConvert to convert nrrd to nii (–conversionMode NrrdToFSL) on the data that were previously preprocessed by DTIPrep (before that I successfully converted them from nii to nrrd…

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## [Co-Ordinate Transformation](https://discourse.slicer.org/t/co-ordinate-transformation/4816)

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**Author:** [@Stweie](https://discourse.slicer.org/u/Stweie)\
**Replies:** 3\
**Last updated:** [November 20, 2018, 5:35pm UTC](https://discourse.slicer.org/t/co-ordinate-transformation/4816 "2018-11-20T17:35:26Z")

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I am fairly new to 3D slicer. I have a .dcm series and corresponding nifti file having lesion position. After overlaying nifti over dcm series I am trying to compute the position of lesions from the nifti label to dcm …

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## [ExtractSkeleton not writing output points or producing markup fiducials (MacOS 10.12, Slicer 4.11-2018-11-14)](https://discourse.slicer.org/t/extractskeleton-not-writing-output-points-or-producing-markup-fiducials-macos-10-12-slicer-4-11-2018-11-14/4778)

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**Author:** [@mschumaker](https://discourse.slicer.org/u/mschumaker)\
**Replies:** 6\
**Last updated:** [November 19, 2018, 9:15pm UTC](https://discourse.slicer.org/t/extractskeleton-not-writing-output-points-or-producing-markup-fiducials-macos-10-12-slicer-4-11-2018-11-14/4778 "2018-11-19T21:15:28Z")

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I’m trying to use the ExtractSkeleton module to find the centreline of an artery. I’m posting to “Support” because I’m currently trying to do it from the GUI. On MacOS 10.12, and I just downloaded the pre-compiled newest…

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## [Is there a way to build a macro/script out of segment editor steps?](https://discourse.slicer.org/t/is-there-a-way-to-build-a-macro-script-out-of-segment-editor-steps/4170)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 12\
**Last updated:** [November 19, 2018, 7:01pm UTC](https://discourse.slicer.org/t/is-there-a-way-to-build-a-macro-script-out-of-segment-editor-steps/4170 "2018-11-19T19:01:39Z")

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Hello, Let say, I want to apply a series of effects in segment editor to multiple datasets. Is there a way to record a ‘macro’ or build a script by interactively doing the steps in editor one time, and using that as a s…

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## [error message "Failed to find python interpreter for CLI"](https://discourse.slicer.org/t/error-message-failed-to-find-python-interpreter-for-cli/4749)

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**Author:** [@ueda](https://discourse.slicer.org/u/ueda)\
**Replies:** 2\
**Last updated:** [November 19, 2018, 5:09pm UTC](https://discourse.slicer.org/t/error-message-failed-to-find-python-interpreter-for-cli/4749 "2018-11-19T17:09:37Z")

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Operating system: ubuntu16.04 Slicer version:4.11.0-2018-11-08 Expected behavior:Non error messages Actual behavior:Error(s): Failed to find python interpreter for CLI Hellow. I’m a beginner at python and 3D slicer. …

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## [I cannot remove "ridges" in 3D segmentation](https://discourse.slicer.org/t/i-cannot-remove-ridges-in-3d-segmentation/4792)

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**Author:** [@nwskelley](https://discourse.slicer.org/u/nwskelley)\
**Replies:** 4\
**Last updated:** [November 19, 2018, 3:34pm UTC](https://discourse.slicer.org/t/i-cannot-remove-ridges-in-3d-segmentation/4792 "2018-11-19T15:34:55Z")

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Hello! I am a surgeon trying to segment a hip joint for 3-D printing. I have become pretty good at isolating the femur and pelvis bones making different segments, however, I’ve noticed in all of my models I have these…

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## [Create a new axial dicom series (8bit RGB) with all the segmentations (or labelmaps) displayed in the Red Slices burned in](https://discourse.slicer.org/t/create-a-new-axial-dicom-series-8bit-rgb-with-all-the-segmentations-or-labelmaps-displayed-in-the-red-slices-burned-in/4800)

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**Author:** [@Michele\_Bailo](https://discourse.slicer.org/u/Michele_Bailo)\
**Replies:** 1\
**Last updated:** [November 19, 2018, 2:24pm UTC](https://discourse.slicer.org/t/create-a-new-axial-dicom-series-8bit-rgb-with-all-the-segmentations-or-labelmaps-displayed-in-the-red-slices-burned-in/4800 "2018-11-19T14:24:19Z")

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Hi there, I need to create a new axial dicom series (8bit RGB) with all the segmentations (or labelmaps) displayed in the Red Slices “burned in” in a single layer. I need it to be able to send to the local PACS a singl…

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## [Simple example to add a vtk object to Slicer 3D view](https://discourse.slicer.org/t/simple-example-to-add-a-vtk-object-to-slicer-3d-view/4797)

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**Author:** [@brhoom](https://discourse.slicer.org/u/brhoom)\
**Replies:** 1\
**Last updated:** [November 19, 2018, 1:32pm UTC](https://discourse.slicer.org/t/simple-example-to-add-a-vtk-object-to-slicer-3d-view/4797 "2018-11-19T13:32:31Z")

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Operating system: Ubuntu 18.04 Slicer version: 4.10 This is not a question but a simple example for beginners. The sphere can be replaced by other polydata object. import vtk source = vtk.vtkSphereSource() source.S…

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## [How to overlay a DICOM volume on a nii.gz segmentation image for editing in segment editor?](https://discourse.slicer.org/t/how-to-overlay-a-dicom-volume-on-a-nii-gz-segmentation-image-for-editing-in-segment-editor/2802)

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**Author:** [@Fuessinger](https://discourse.slicer.org/u/Fuessinger)\
**Replies:** 5\
**Last updated:** [November 19, 2018, 1:07pm UTC](https://discourse.slicer.org/t/how-to-overlay-a-dicom-volume-on-a-nii-gz-segmentation-image-for-editing-in-segment-editor/2802 "2018-11-19T13:07:04Z")

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Operating system: MAC Slicer version: 4.81. Hallo, I want to edit my segmentation which is saved as nii.gz on basis of a dicom file. How I can modify the dicim and the nii.gz to edit the segmentation? Thanks for you…

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## [Improved 3D preview during segmentation](https://discourse.slicer.org/t/improved-3d-preview-during-segmentation/4795)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 0\
**Last updated:** [November 19, 2018, 5:39am UTC](https://discourse.slicer.org/t/improved-3d-preview-during-segmentation/4795 "2018-11-19T05:39:13Z")

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Two small but useful improvements have been made to Segment Editor module, which allows easier and faster preview of segmentation results in 3D. These features are available in latest nightly versions (2018-11-19 or late…

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## [DICOM network retrieval from PACS - automated approach possible?](https://discourse.slicer.org/t/dicom-network-retrieval-from-pacs-automated-approach-possible/4780)

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**Author:** [@Sandor\_Konya](https://discourse.slicer.org/u/Sandor_Konya)\
**Replies:** 2\
**Last updated:** [November 18, 2018, 6:00pm UTC](https://discourse.slicer.org/t/dicom-network-retrieval-from-pacs-automated-approach-possible/4780 "2018-11-18T18:00:04Z")

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Hi there, i’ve managed to set up a PACS server connection in Slicer, image retrieval is w/o problem, listener listens and gets/stores images, they show up in local DICOM storage. So far so good, but i would like to “dow…

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## [Dicom Volume Render an unmatched series](https://discourse.slicer.org/t/dicom-volume-render-an-unmatched-series/4732)

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**Author:** [@epdawson](https://discourse.slicer.org/u/epdawson)\
**Replies:** 7\
**Last updated:** [November 18, 2018, 3:36pm UTC](https://discourse.slicer.org/t/dicom-volume-render-an-unmatched-series/4732 "2018-11-18T15:36:33Z")

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I have an ultrasound data set that has been converted to individual dicom files. However, these files have no reference to each other, so in Slicer they all are loaded as individual volumes. Is there a way to combine the…

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## [Dual view with the segment editor](https://discourse.slicer.org/t/dual-view-with-the-segment-editor/1413)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 3\
**Last updated:** [November 18, 2018, 3:24pm UTC](https://discourse.slicer.org/t/dual-view-with-the-segment-editor/1413 "2018-11-18T15:24:43Z")

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Hi, I am using scissors tool a lot to trim unwanted data. I do this in the side view of the specimen, but I also need to see how the specimen looks front on, so that I do not cut into it at an angle. I can turn on the d…

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## [Python script to overlay nifti file on dcm file](https://discourse.slicer.org/t/python-script-to-overlay-nifti-file-on-dcm-file/4784)

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**Author:** [@Stweie](https://discourse.slicer.org/u/Stweie)\
**Replies:** 0\
**Last updated:** [November 18, 2018, 11:00am UTC](https://discourse.slicer.org/t/python-script-to-overlay-nifti-file-on-dcm-file/4784 "2018-11-18T11:00:18Z")

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We can overlay nifti.gz file on top of .dcm series in 3D slicer. I want to do the same task in python. Any idea or code would be great help. I can read both .dcm series and nifti file using pydicom and nibabel. But the …

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## [Threshold scalar volume error](https://discourse.slicer.org/t/threshold-scalar-volume-error/4753)

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**Author:** [@kayarre](https://discourse.slicer.org/u/kayarre)\
**Replies:** 11\
**Last updated:** [November 16, 2018, 7:57pm UTC](https://discourse.slicer.org/t/threshold-scalar-volume-error/4753 "2018-11-16T19:57:24Z")

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I have a signed distance field that I am thresholding to a label map volume, everything below zero should be identified as the segmentation that I am interested in, however when I do this the returned mask is larger tha…

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## [Get heart inner details in segment](https://discourse.slicer.org/t/get-heart-inner-details-in-segment/4759)

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**Author:** [@anandmulay3](https://discourse.slicer.org/u/anandmulay3)\
**Replies:** 0\
**Last updated:** [November 14, 2018, 2:28pm UTC](https://discourse.slicer.org/t/get-heart-inner-details-in-segment/4759 "2018-11-14T14:28:32Z")

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i have already created a heart model using seed grow module and followed the video provided by @lassoan , its really nice . But i want some inner detail of the heart , using above module and method i get nice heart mod…

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## [OpenCV extension missing from latest stable and nightly versions](https://discourse.slicer.org/t/opencv-extension-missing-from-latest-stable-and-nightly-versions/4771)

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**Author:** [@RebeccaHisey](https://discourse.slicer.org/u/RebeccaHisey)\
**Replies:** 2\
**Last updated:** [November 16, 2018, 12:00pm UTC](https://discourse.slicer.org/t/opencv-extension-missing-from-latest-stable-and-nightly-versions/4771 "2018-11-16T12:00:52Z")

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Operating system: windows 10 Slicer version: 4.10.0 (stable) The slicer openCV extension appears to be missing from the latest stable (4.10.0, downloaded on 15/11/2018) and any of recent the nightly builds (tried versi…

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## [Radiomics extension build errors on Windows](https://discourse.slicer.org/t/radiomics-extension-build-errors-on-windows/4616)

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**Author:** [@pieper](https://discourse.slicer.org/u/pieper)\
**Replies:** 11\
**Last updated:** [November 16, 2018, 6:44am UTC](https://discourse.slicer.org/t/radiomics-extension-build-errors-on-windows/4616 "2018-11-16T06:44:09Z")

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It’s available for linux 4.10, but there is a build error on windows. @JoostJM or @jcfr any ideas about this one? http://slicer.cdash.org/viewBuildError.php?buildid=1410882

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## [System hangs on volume reconstruction from tracked ultrasound](https://discourse.slicer.org/t/system-hangs-on-volume-reconstruction-from-tracked-ultrasound/4748)

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**Author:** [@smaatze](https://discourse.slicer.org/u/smaatze)\
**Replies:** 1\
**Last updated:** [November 15, 2018, 8:30pm UTC](https://discourse.slicer.org/t/system-hangs-on-volume-reconstruction-from-tracked-ultrasound/4748 "2018-11-15T20:30:25Z")

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Operating system: windows 7 Slicer version: last version Expected behavior: Actual behavior:

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## [Access Color Node from Colors Widget (python)](https://discourse.slicer.org/t/access-color-node-from-colors-widget-python/4752)

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**Author:** [@Valtiel](https://discourse.slicer.org/u/Valtiel)\
**Replies:** 5\
**Last updated:** [November 15, 2018, 10:10am UTC](https://discourse.slicer.org/t/access-color-node-from-colors-widget-python/4752 "2018-11-15T10:10:24Z")

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Hi! I managed to connect the colors widget via slicer.modules.colors.widgetRepresentation. Now I want to use the color node from the ColorTableComboBox, but I can’t access it. Basically, my code would be: self.visual…

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