# Support **URL:** https://discourse.slicer.org/c/support/11.md?page=225 [Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md) **Page:** 226 --- ## [Import and use existing code/library in a new module](https://discourse.slicer.org/t/import-and-use-existing-code-library-in-a-new-module/23262)
**Author:** [@llafitte007](https://discourse.slicer.org/u/llafitte007)\ **Replies:** 5\ **Last updated:** [May 5, 2022, 9:25am UTC](https://discourse.slicer.org/t/import-and-use-existing-code-library-in-a-new-module/23262 "2022-05-05T09:25:58Z")
Hi, in a previous work, I made a c++ library usable from a python program (using the cython tool). It works perfectly but has to be run from the command line. Now I’m trying to develop a module that would allow to laun… --- ## [Where is draw tube?](https://discourse.slicer.org/t/where-is-draw-tube/23281)
**Author:** [@alyssan](https://discourse.slicer.org/u/alyssan)\ **Replies:** 2\ **Last updated:** [May 4, 2022, 5:51pm UTC](https://discourse.slicer.org/t/where-is-draw-tube/23281 "2022-05-04T17:51:07Z")
Where is the draw tube tool under segementation editor? I cannot find it --- ## [Open a segmented volume of 4 different phases](https://discourse.slicer.org/t/open-a-segmented-volume-of-4-different-phases/23277)
**Author:** [@lolamartinalonso](https://discourse.slicer.org/u/lolamartinalonso)\ **Replies:** 1\ **Last updated:** [May 4, 2022, 11:58am UTC](https://discourse.slicer.org/t/open-a-segmented-volume-of-4-different-phases/23277 "2022-05-04T11:58:35Z")
Hi, I have a segmented volume with 4 different phases. Each phase has a different value from 0 to 4 in the histogram. When I try to upload the volume (saved as .mrrda) it appears in black and white only. When in ImageJ … --- ## [Problem about building SlicerCustomAppTemplate](https://discourse.slicer.org/t/problem-about-building-slicercustomapptemplate/23271)
**Author:** [@zhiyuan](https://discourse.slicer.org/u/zhiyuan)\ **Replies:** 1\ **Last updated:** [May 4, 2022, 9:41am UTC](https://discourse.slicer.org/t/problem-about-building-slicercustomapptemplate/23271 "2022-05-04T09:41:35Z")
When I use slicercustomapptemplate customization program, I have several questions: What preparations do I need to make before all builds? For example, do I need to download cmake, vs2017 and install QT (I use the pyt… --- ## [Landmark Registration transform resampling](https://discourse.slicer.org/t/landmark-registration-transform-resampling/23243)
**Author:** [@giovform](https://discourse.slicer.org/u/giovform)\ **Replies:** 3\ **Last updated:** [May 4, 2022, 1:30am UTC](https://discourse.slicer.org/t/landmark-registration-transform-resampling/23243 "2022-05-04T01:30:18Z")
Hello, I am using the Landmark Registration module to register a labelmap image onto another vector image. The registration is done with success, but I want to harden this transformation. Since it is a labelmap, using “H… --- ## [volume has Gz archive files](https://discourse.slicer.org/t/volume-has-gz-archive-files/23270)
**Author:** [@pmabz](https://discourse.slicer.org/u/pmabz)\ **Replies:** 1\ **Last updated:** [May 3, 2022, 11:13pm UTC](https://discourse.slicer.org/t/volume-has-gz-archive-files/23270 "2022-05-03T23:13:00Z")
Operating system: ubuntu Slicer version:5.1.0 Expected behavior: read files Actual behavior: no DICOM data i have 514 fo;es, of type Gzip archive and one test file thus \ -92… --- ## [I want to generate a ROI without a background](https://discourse.slicer.org/t/i-want-to-generate-a-roi-without-a-background/17871)
**Author:** [@pardisz](https://discourse.slicer.org/u/pardisz)\ **Replies:** 3\ **Last updated:** [May 3, 2022, 11:05pm UTC](https://discourse.slicer.org/t/i-want-to-generate-a-roi-without-a-background/17871 "2022-05-03T23:05:48Z")
I have created an ROI and exported it as a nifti file on 3Dslicer v4. When I try to overlay the ROI to a template on mricron I can see that the nifti file from slicer doesn’t only include the ROI, but also a black backgr… --- ## [Dislocation of some sections in my 3D model](https://discourse.slicer.org/t/dislocation-of-some-sections-in-my-3d-model/10379)
**Author:** [@o.ozkan.oguz](https://discourse.slicer.org/u/o.ozkan.oguz)\ **Replies:** 6\ **Last updated:** [May 3, 2022, 6:31pm UTC](https://discourse.slicer.org/t/dislocation-of-some-sections-in-my-3d-model/10379 "2022-05-03T18:31:19Z")
I am working on Visible Human Project dataset which is cryosection images of human body. I changed the format of BMP images to PNG format and translated the colours to gray scale. In the dataset there are a few dislocati… --- ## [Difficulty editing Previously Saved Segmentation](https://discourse.slicer.org/t/difficulty-editing-previously-saved-segmentation/23247)
**Author:** [@SE\_Strickland](https://discourse.slicer.org/u/SE_Strickland)\ **Replies:** 2\ **Last updated:** [May 3, 2022, 2:12pm UTC](https://discourse.slicer.org/t/difficulty-editing-previously-saved-segmentation/23247 "2022-05-03T14:12:38Z")
I am having an issue with editing previously created segments when I reopen a saved file. Whenever I try to erase parts of previous segmentations, they become a little lighter (and I can make edits over them) but do not … --- ## [3D Slicer not running after Python 3.8 installation](https://discourse.slicer.org/t/3d-slicer-not-running-after-python-3-8-installation/23214)
**Author:** [@NiinaIn3D](https://discourse.slicer.org/u/NiinaIn3D)\ **Replies:** 3\ **Last updated:** [May 3, 2022, 12:35pm UTC](https://discourse.slicer.org/t/3d-slicer-not-running-after-python-3-8-installation/23214 "2022-05-03T12:35:31Z")
Hi everyone, couple of days ago I had a program installed which required also installing Python 3.8. After this 3D Slicer will no longer run. Any ideas what I could do to fix the issue? From end user perspective I have a… --- ## [Template download failed](https://discourse.slicer.org/t/template-download-failed/23254)
**Author:** [@zhiyuan](https://discourse.slicer.org/u/zhiyuan)\ **Replies:** 1\ **Last updated:** [May 3, 2022, 7:59am UTC](https://discourse.slicer.org/t/template-download-failed/23254 "2022-05-03T07:59:37Z")
--- ## [Wavelet features with "flat region"?](https://discourse.slicer.org/t/wavelet-features-with-flat-region/22644)
**Author:** [@Helo](https://discourse.slicer.org/u/Helo)\ **Replies:** 1\ **Last updated:** [May 3, 2022, 7:46am UTC](https://discourse.slicer.org/t/wavelet-features-with-flat-region/22644 "2022-05-03T07:46:15Z")
Hi everyone! I am doing a feature extraction and one of the problems I am having is some “flat regions” in the wavelet features of some events (not all dataset and not always the same features), like: … --- ## [Auto threshold function for a specific area?](https://discourse.slicer.org/t/auto-threshold-function-for-a-specific-area/23080)
**Author:** [@Jinny\_Lee](https://discourse.slicer.org/u/Jinny_Lee)\ **Replies:** 3\ **Last updated:** [May 2, 2022, 10:27pm UTC](https://discourse.slicer.org/t/auto-threshold-function-for-a-specific-area/23080 "2022-05-02T22:27:31Z")
Hi, I’m trying to segment a specific area from an FDG PET image and use the “Automatic threshold” function to get an automatic value from the selected area. I’ve tried using the “Masking” function but it didn’t work be… --- ## [Why slice-view can not be updated/changed with one-by-one image dimension with a small pixel-spacing?](https://discourse.slicer.org/t/why-slice-view-can-not-be-updated-changed-with-one-by-one-image-dimension-with-a-small-pixel-spacing/23223)
**Author:** [@aiden.zhu](https://discourse.slicer.org/u/aiden.zhu)\ **Replies:** 8\ **Last updated:** [May 2, 2022, 10:13pm UTC](https://discourse.slicer.org/t/why-slice-view-can-not-be-updated-changed-with-one-by-one-image-dimension-with-a-small-pixel-spacing/23223 "2022-05-02T22:13:50Z")
Operating system: windows Slicer version: 4.11.2210226 Expected behavior: slice view updated one slice by one slice Actual behavior: only after two slices. Hi all, First of all, while I increase the pixel-spacing by… --- ## [How to join two sets of CT slices and change the volume?](https://discourse.slicer.org/t/how-to-join-two-sets-of-ct-slices-and-change-the-volume/23239)
**Author:** [@Gabu](https://discourse.slicer.org/u/Gabu)\ **Replies:** 0\ **Last updated:** [May 2, 2022, 5:21pm UTC](https://discourse.slicer.org/t/how-to-join-two-sets-of-ct-slices-and-change-the-volume/23239 "2022-05-02T17:21:36Z")
Hi, I’m new to 3D slicer, I’m trying to join two bone CT scans into a single file, but I can’t see the slices in R, Y and G views. I would like to change the volume so that all slices appear. I hope I was clear, I don’t … --- ## [Using the show 3D smoothing algorithm on exported meshes](https://discourse.slicer.org/t/using-the-show-3d-smoothing-algorithm-on-exported-meshes/23177)
**Author:** [@Tommaso](https://discourse.slicer.org/u/Tommaso)\ **Replies:** 2\ **Last updated:** [May 2, 2022, 7:40am UTC](https://discourse.slicer.org/t/using-the-show-3d-smoothing-algorithm-on-exported-meshes/23177 "2022-05-02T07:40:18Z")
Hello everybody, I am a new user of Slicer and I realized a segmentation based on a US file which I would like to export for additional post processing in a dedicated software Can you explain me if the algorithm used f… --- ## [Align PET and CT images](https://discourse.slicer.org/t/align-pet-and-ct-images/23228)
**Author:** [@Liu\_Lance](https://discourse.slicer.org/u/Liu_Lance)\ **Replies:** 0\ **Last updated:** [May 2, 2022, 7:26am UTC](https://discourse.slicer.org/t/align-pet-and-ct-images/23228 "2022-05-02T07:26:04Z")
Hi I feel very curious about how the two images PET (img\_suv) and CT (imgCT) align together in the 3d slicer. they are from the same object. but the nifti affines are different as shown in the following figures. in the … --- ## [After I got the cross-sectional area of a ROI, How can I measure its HU values?](https://discourse.slicer.org/t/after-i-got-the-cross-sectional-area-of-a-roi-how-can-i-measure-its-hu-values/23162)
**Author:** [@lyk-snail](https://discourse.slicer.org/u/lyk-snail)\ **Replies:** 2\ **Last updated:** [May 1, 2022, 8:17pm UTC](https://discourse.slicer.org/t/after-i-got-the-cross-sectional-area-of-a-roi-how-can-i-measure-its-hu-values/23162 "2022-05-01T20:17:51Z")
Hello! I’ve been using 3D slicer for a while. I have got the cross-sectional area of a muscle after I used the “segment editor” module AND the " Segment Cross-Section Area" module. But I don’t know how to measure the HU… --- ## [tip about using slices](https://discourse.slicer.org/t/tip-about-using-slices/23221)
**Author:** [@Samantha](https://discourse.slicer.org/u/Samantha)\ **Replies:** 0\ **Last updated:** [May 1, 2022, 6:14pm UTC](https://discourse.slicer.org/t/tip-about-using-slices/23221 "2022-05-01T18:14:40Z")
Hi, i’m doing a thesis and i’ studying a micro-sampling of petrous bones. I would like to showcase the sampling compared to the cochlea but i don’t know how to do. Is there someone who can help me? In the picture the… --- ## [Optical marker tracking and outputting positional data](https://discourse.slicer.org/t/optical-marker-tracking-and-outputting-positional-data/23205)
**Author:** [@jh3chu](https://discourse.slicer.org/u/jh3chu)\ **Replies:** 1\ **Last updated:** [April 30, 2022, 1:27pm UTC](https://discourse.slicer.org/t/optical-marker-tracking-and-outputting-positional-data/23205 "2022-04-30T13:27:50Z")
Hello, New to Slicer and Python and am currently working on a project using the the optical marker tracking from PLUS and visualizing it with the SlicerIGT module. I currently have a .mha sequence file saved tracking t… --- ## [Slicer custom building MSB8066 Error](https://discourse.slicer.org/t/slicer-custom-building-msb8066-error/23174)
**Author:** [@wrx15113330303](https://discourse.slicer.org/u/wrx15113330303)\ **Replies:** 1\ **Last updated:** [April 30, 2022, 4:07am UTC](https://discourse.slicer.org/t/slicer-custom-building-msb8066-error/23174 "2022-04-30T04:07:10Z")
Hi there, can anyone help me with this building error? --- ## [Using Slicer via VNC + VirtualGL](https://discourse.slicer.org/t/using-slicer-via-vnc-virtualgl/11702)
**Author:** [@Deepa](https://discourse.slicer.org/u/Deepa)\ **Replies:** 10\ **Last updated:** [April 30, 2022, 1:31am UTC](https://discourse.slicer.org/t/using-slicer-via-vnc-virtualgl/11702 "2022-04-30T01:31:06Z")
I’m trying to access Slicer installed on a server through tigervnc client. But I get the following error \[user@server ~\]$ vglrun glxgears No protocol specified Error: couldn't open display :0 \[user@server ~\]$ vncserver … --- ## [Show degree of inclination of 3d reconstruction condering right left craniocaudal view](https://discourse.slicer.org/t/show-degree-of-inclination-of-3d-reconstruction-condering-right-left-craniocaudal-view/23206)
**Author:** [@Moddy\_hadi](https://discourse.slicer.org/u/Moddy_hadi)\ **Replies:** 0\ **Last updated:** [April 30, 2022, 1:18am UTC](https://discourse.slicer.org/t/show-degree-of-inclination-of-3d-reconstruction-condering-right-left-craniocaudal-view/23206 "2022-04-30T01:18:45Z")
How to show degree of right and left and craniocaudal view as if working on angiocath --- ## [Loading a nifti/dicom changes all the other windows](https://discourse.slicer.org/t/loading-a-nifti-dicom-changes-all-the-other-windows/23143)
**Author:** [@nuttay](https://discourse.slicer.org/u/nuttay)\ **Replies:** 4\ **Last updated:** [April 29, 2022, 6:10pm UTC](https://discourse.slicer.org/t/loading-a-nifti-dicom-changes-all-the-other-windows/23143 "2022-04-29T18:10:01Z")
Hi, this is maybe pretty basic but I can’t seem to find the solution ind documentation. Whenever I drag-drop a nifti into one of the windows, all the other windows get changed; i.e. they load the same file or they chang… --- ## [How to determine the maximum posible size of a inside shell before extruding the external surface?](https://discourse.slicer.org/t/how-to-determine-the-maximum-posible-size-of-a-inside-shell-before-extruding-the-external-surface/23175)
**Author:** [@Ricardo\_Vega](https://discourse.slicer.org/u/Ricardo_Vega)\ **Replies:** 1\ **Last updated:** [April 29, 2022, 5:48pm UTC](https://discourse.slicer.org/t/how-to-determine-the-maximum-posible-size-of-a-inside-shell-before-extruding-the-external-surface/23175 "2022-04-29T17:48:17Z")
Hello, I need to make some measurements for bone tunnels. Right now we are exporting a bone model to meshmixer, then we create a cilindre aligned on a defined axis inside the bone. We then manually increase the diamete… --- ## [Install pyserial](https://discourse.slicer.org/t/install-pyserial/23194)
**Author:** [@jgc2155338150](https://discourse.slicer.org/u/jgc2155338150)\ **Replies:** 0\ **Last updated:** [April 29, 2022, 1:16pm UTC](https://discourse.slicer.org/t/install-pyserial/23194 "2022-04-29T13:16:15Z")
Hi, I intend to run the Python serial program in the Python Interactor. The Serial module was installed, and then I was prompted to install the PySerial module with the information shown below. This was the case for … --- ## [Extraction 3\*3 Matrix from DTI Image](https://discourse.slicer.org/t/extraction-3-3-matrix-from-dti-image/23149)
**Author:** [@Haytham](https://discourse.slicer.org/u/Haytham)\ **Replies:** 3\ **Last updated:** [April 29, 2022, 12:15pm UTC](https://discourse.slicer.org/t/extraction-3-3-matrix-from-dti-image/23149 "2022-04-29T12:15:59Z")
Hi all, I have a set of patients’ dti images. How do I extract the 3x3 diffusion tensor matrices per each voxel in C++ using VTK? thank you --- ## [Syntax error in custom slicer build](https://discourse.slicer.org/t/syntax-error-in-custom-slicer-build/23184)
**Author:** [@wrx15113330303](https://discourse.slicer.org/u/wrx15113330303)\ **Replies:** 2\ **Last updated:** [April 29, 2022, 10:44am UTC](https://discourse.slicer.org/t/syntax-error-in-custom-slicer-build/23184 "2022-04-29T10:44:22Z")
Hi there, can anyone help me with this problem? I am following the instruction in SlicerCAT(https://www.kitware.com/slicercat-creating-custom-applications-based-on-3d-slicer/) to build a custom slicer application. I did… --- ## [Factory build of python extensions conflicting with each other](https://discourse.slicer.org/t/factory-build-of-python-extensions-conflicting-with-each-other/21935)
**Author:** [@jamesobutler](https://discourse.slicer.org/u/jamesobutler)\ **Replies:** 3\ **Last updated:** [April 29, 2022, 8:34am UTC](https://discourse.slicer.org/t/factory-build-of-python-extensions-conflicting-with-each-other/21935 "2022-04-29T08:34:47Z")
I noticed an issue occurring during the factory build of python extensions where an extension may be installing new python packages which results in Slicer core python packages having their installed version modified. Th… --- ## [combine two volumes into one using python](https://discourse.slicer.org/t/combine-two-volumes-into-one-using-python/23152)
**Author:** [@Katya\_Stansfield](https://discourse.slicer.org/u/Katya_Stansfield)\ **Replies:** 8\ **Last updated:** [April 29, 2022, 8:17am UTC](https://discourse.slicer.org/t/combine-two-volumes-into-one-using-python/23152 "2022-04-29T08:17:14Z")
Hi, I need to automate combining two volumes into one. I have DICOM files of whole body CT scans of a body, split into parts. The parts overlap slightly. My aim is to be able to quickly merge the torso and legs to obtain… [Previous page](https://discourse.slicer.org/c/support/11.md?page=224) [Next page](https://discourse.slicer.org/c/support/11.md?page=226)