# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=267

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

**Page:** 268

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## [Questions about the threshold](https://discourse.slicer.org/t/questions-about-the-threshold/15584)

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**Author:** [@Andreas](https://discourse.slicer.org/u/Andreas)\
**Replies:** 1\
**Last updated:** [August 3, 2021, 4:24pm UTC](https://discourse.slicer.org/t/questions-about-the-threshold/15584 "2021-08-03T16:24:19Z")

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Hello everybody, I would like to know which of these ten methods (algorithms) belong to the global and which to the local threshold value? The difference between global and local is not yet clear to me Many thanks f…

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## [Plus remote \> 'scan scout' error (Plus server)](https://discourse.slicer.org/t/plus-remote-scan-scout-error-plus-server/19019)

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**Author:** [@sujin](https://discourse.slicer.org/u/sujin)\
**Replies:** 1\
**Last updated:** [August 3, 2021, 4:23pm UTC](https://discourse.slicer.org/t/plus-remote-scan-scout-error-plus-server/19019 "2021-08-03T16:23:11Z")

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Hello. I’m sujin I am currently sending ‘images’ and ‘image’s location information’ from visual studio to 3D slicer and plus server using openigtlink. The images and location information is transmitted well in real…

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## [Improve the display effect of the model](https://discourse.slicer.org/t/improve-the-display-effect-of-the-model/19037)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 3\
**Last updated:** [August 3, 2021, 1:55pm UTC](https://discourse.slicer.org/t/improve-the-display-effect-of-the-model/19037 "2021-08-03T13:55:01Z")

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Will the developer improve the display effect of the models, as shown in the figure below, with 3-matic research on the left and slicer on the right. They are exactly the same models.

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## [Blank lines after ACPC transform](https://discourse.slicer.org/t/blank-lines-after-acpc-transform/19040)

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**Author:** [@YingHsu](https://discourse.slicer.org/u/YingHsu)\
**Replies:** 1\
**Last updated:** [August 3, 2021, 1:49pm UTC](https://discourse.slicer.org/t/blank-lines-after-acpc-transform/19040 "2021-08-03T13:49:38Z")

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Dear experts: When I use segment editor, I often encountered some blank lines when I tried to paint on sagittal view after doing ACPC transform. And there are patches appear in adjacent slices. Can you give me some adv…

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## [Wrap Solidify only for vtk models](https://discourse.slicer.org/t/wrap-solidify-only-for-vtk-models/19030)

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**Author:** [@siaeleni](https://discourse.slicer.org/u/siaeleni)\
**Replies:** 2\
**Last updated:** [August 3, 2021, 12:14pm UTC](https://discourse.slicer.org/t/wrap-solidify-only-for-vtk-models/19030 "2021-08-03T12:14:18Z")

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Hello, I want to use the functionality from Wrap Solidify to a vtk model, without having any DICOM file, Is it possible to do that, if yes can you give me a hint? Thanks

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## [How to add new dynamic modeler in source code?](https://discourse.slicer.org/t/how-to-add-new-dynamic-modeler-in-source-code/18985)

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**Author:** [@StephenLeePeng](https://discourse.slicer.org/u/StephenLeePeng)\
**Replies:** 2\
**Last updated:** [August 3, 2021, 8:08am UTC](https://discourse.slicer.org/t/how-to-add-new-dynamic-modeler-in-source-code/18985 "2021-08-03T08:08:11Z")

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Operating system: Ubuntu 18.04 Slicer version: self-build, Slicer 4.13.0 Expected behavior: As 3d Slicer’s “Dynamic Modeler” module don’t supply open surface cut function by now, If I want to develop a new tool named …

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## [Converting open surface model into segmentation](https://discourse.slicer.org/t/converting-open-surface-model-into-segmentation/19034)

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**Author:** [@siaeleni](https://discourse.slicer.org/u/siaeleni)\
**Replies:** 1\
**Last updated:** [August 3, 2021, 1:57am UTC](https://discourse.slicer.org/t/converting-open-surface-model-into-segmentation/19034 "2021-08-03T01:57:29Z")

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Hello, I am wondering whether the result from the segmentation is correct. I load a .stl file and, right-click “convert model to segmentation mode”. The result that I get seems weird, but I am not sure if that is corr…

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## [How to read a volumetric mesh in python?](https://discourse.slicer.org/t/how-to-read-a-volumetric-mesh-in-python/18974)

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**Author:** [@Matheus](https://discourse.slicer.org/u/Matheus)\
**Replies:** 2\
**Last updated:** [August 2, 2021, 6:17pm UTC](https://discourse.slicer.org/t/how-to-read-a-volumetric-mesh-in-python/18974 "2021-08-02T18:17:17Z")

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Hello everyone! I segmented some DICOM files and turned the segmentation into a volumetric mesh. I want to read and plot this file correctly in python. Can you tell me how to do this the best way without losing informat…

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## [Window width/level range calculation](https://discourse.slicer.org/t/window-width-level-range-calculation/19010)

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**Author:** [@siyuan](https://discourse.slicer.org/u/siyuan)\
**Replies:** 3\
**Last updated:** [August 2, 2021, 5:26pm UTC](https://discourse.slicer.org/t/window-width-level-range-calculation/19010 "2021-08-02T17:26:25Z")

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Hi, recently I found the automatic adjustion of window width and level using a selected region in Slicer was quite useful. I want to implement it in my own way in python using SimpleITK. I’ve checked VTK website but foun…

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## [Color of PCA Scatter Plot](https://discourse.slicer.org/t/color-of-pca-scatter-plot/19029)

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**Author:** [@landerson](https://discourse.slicer.org/u/landerson)\
**Replies:** 1\
**Last updated:** [August 2, 2021, 5:04pm UTC](https://discourse.slicer.org/t/color-of-pca-scatter-plot/19029 "2021-08-02T17:04:51Z")

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Hi, I’ve made a PCA scatter plot in the SlicerMorph package. The points are this really light blue color and I was wondering if there was any way to change the color of the points?

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## [SegmentEditor consuming tons of memory & 3d slicer crashes](https://discourse.slicer.org/t/segmenteditor-consuming-tons-of-memory-3d-slicer-crashes/19014)

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**Author:** [@Panda](https://discourse.slicer.org/u/Panda)\
**Replies:** 5\
**Last updated:** [August 2, 2021, 5:22am UTC](https://discourse.slicer.org/t/segmenteditor-consuming-tons-of-memory-3d-slicer-crashes/19014 "2021-08-02T05:22:38Z")

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hello, I have been working to automate some tasks for a set of CT scans which otherwise would take a long time. The code I wrote worked perfectly and in reasonable amount of time until now when I wrote a function where …

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## [Fiducial registration wizard automatic and manual registration](https://discourse.slicer.org/t/fiducial-registration-wizard-automatic-and-manual-registration/18980)

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**Author:** [@parvaneh.a](https://discourse.slicer.org/u/parvaneh.a)\
**Replies:** 3\
**Last updated:** [August 2, 2021, 1:04am UTC](https://discourse.slicer.org/t/fiducial-registration-wizard-automatic-and-manual-registration/18980 "2021-08-02T01:04:36Z")

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Operating system: ubuntu 20 Slicer version: Expected behavior: Actual behavior: Hi, I have some questions regarding automatic and manual registration in Fiducial registration wizard. I am using them in my research. …

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## [excel output from 3d slicer markups](https://discourse.slicer.org/t/excel-output-from-3d-slicer-markups/19005)

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**Author:** [@Irem\_Adalilar](https://discourse.slicer.org/u/Irem_Adalilar)\
**Replies:** 2\
**Last updated:** [August 2, 2021, 12:10am UTC](https://discourse.slicer.org/t/excel-output-from-3d-slicer-markups/19005 "2021-08-02T00:10:30Z")

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Operating system: windows 10 Slicer version: 4.11 Expected behavior: to create excel file including distance between more than two markups Actual behavior: there is no option for that

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## [Command Line - Mesh to binary image](https://discourse.slicer.org/t/command-line-mesh-to-binary-image/12633)

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**Author:** [@Kevin\_Eddinger](https://discourse.slicer.org/u/Kevin_Eddinger)\
**Replies:** 9\
**Last updated:** [August 1, 2021, 3:43pm UTC](https://discourse.slicer.org/t/command-line-mesh-to-binary-image/12633 "2021-08-01T15:43:59Z")

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Hi everyone, I have a .OBJ mesh that I would like to convert into a binary segmentation DICOM or NIFTI image. The easiest way for me to do it now is to drag the model into Slicer and change the dropdown from ‘model’ to …

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## [Where to set "Move Storage port" in ctkDICOMRetrieve?](https://discourse.slicer.org/t/where-to-set-move-storage-port-in-ctkdicomretrieve/18915)

<div class="topic-metadata">

**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 4\
**Last updated:** [August 1, 2021, 12:08pm UTC](https://discourse.slicer.org/t/where-to-set-move-storage-port-in-ctkdicomretrieve/18915 "2021-08-01T12:08:37Z")

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I am having problems implementing this code snippet for automatic data retrieval in our hospital network: https://slicer.readthedocs.io/en/latest/developer\_guide/script\_repository.html#query-and-retrieve-data-from-a-pac…

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## [How to import CT imaging in real-time in to Slicer during a procedure?](https://discourse.slicer.org/t/how-to-import-ct-imaging-in-real-time-in-to-slicer-during-a-procedure/19003)

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**Author:** [@ocho87](https://discourse.slicer.org/u/ocho87)\
**Replies:** 2\
**Last updated:** [July 31, 2021, 11:38pm UTC](https://discourse.slicer.org/t/how-to-import-ct-imaging-in-real-time-in-to-slicer-during-a-procedure/19003 "2021-07-31T23:38:25Z")

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Hi, I am looking to important CT imaging directly from the scanner as it is obtained during an Interventional Radiology biopsy procedure. I cannot wait for it to be pushed to PACS, I need to grab the data as the DICOM f…

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## [I am new to slicer,  after applying linear transform to a 3D images and save it on my local computes the images seems to be same as untransformed or original image is there a way I can save a transformed images ](https://discourse.slicer.org/t/i-am-new-to-slicer-after-applying-linear-transform-to-a-3d-images-and-save-it-on-my-local-computes-the-images-seems-to-be-same-as-untransformed-or-original-image-is-there-a-way-i-can-save-a-transformed-images/19006)

<div class="topic-metadata">

**Author:** [@Josiane](https://discourse.slicer.org/u/Josiane)\
**Replies:** 1\
**Last updated:** [July 31, 2021, 7:28pm UTC](https://discourse.slicer.org/t/i-am-new-to-slicer-after-applying-linear-transform-to-a-3d-images-and-save-it-on-my-local-computes-the-images-seems-to-be-same-as-untransformed-or-original-image-is-there-a-way-i-can-save-a-transformed-images/19006 "2021-07-31T19:28:48Z")

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Operating system: Slicer version: Expected behavior: Actual behavior:

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## [Grow from seeds stopped editing during Whole Heart Segmentation-PerkLab](https://discourse.slicer.org/t/grow-from-seeds-stopped-editing-during-whole-heart-segmentation-perklab/18962)

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**Author:** [@Dexter777](https://discourse.slicer.org/u/Dexter777)\
**Replies:** 1\
**Last updated:** [July 29, 2021, 6:53pm UTC](https://discourse.slicer.org/t/grow-from-seeds-stopped-editing-during-whole-heart-segmentation-perklab/18962 "2021-07-29T18:53:19Z")

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Hi, I’m working on 3dp a canine caudal vena and kidneys for a clinical simulator. To learn how to use the Grow Seeds function I downloaded data and started Iassoan’s Whole Heart Segmentation from PerkLabs. I get to the …

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## [Grow from seeds](https://discourse.slicer.org/t/grow-from-seeds/18960)

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**Author:** [@Ron](https://discourse.slicer.org/u/Ron)\
**Replies:** 5\
**Last updated:** [July 29, 2021, 3:54pm UTC](https://discourse.slicer.org/t/grow-from-seeds/18960 "2021-07-29T15:54:21Z")

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Dear Andras The fix for grow from seeds works very well as well as the additional segmentation script, thank you. The only issue is that the 3D rendering does not appear to automatically update. Does so if manually fo…

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## [Reslice Driver Disable Rotation](https://discourse.slicer.org/t/reslice-driver-disable-rotation/18931)

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**Author:** [@jasmine-lou](https://discourse.slicer.org/u/jasmine-lou)\
**Replies:** 6\
**Last updated:** [July 28, 2021, 7:59pm UTC](https://discourse.slicer.org/t/reslice-driver-disable-rotation/18931 "2021-07-28T19:59:07Z")

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Hi everyone! I was wondering if there was a way to disable the rotation of the CTs when using the Reslice Driver in IGT? Right now I understand that the CTs are rotating based on the rotation of the tool, but it can app…

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## ["Tilt Lock" in 3D view](https://discourse.slicer.org/t/tilt-lock-in-3d-view/18801)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 0\
**Last updated:** [July 19, 2021, 5:40pm UTC](https://discourse.slicer.org/t/tilt-lock-in-3d-view/18801 "2021-07-19T17:40:51Z")

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Segmentations can sometimes “tumble” in 3D view. By pressing Ctrl + “b” in 3D view, you can lock the rotation of the model to the azimuth axis only (available in 4.13 nightly builds). This is a toggle switch. …

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## [Only a single slice is loading for cine MRI](https://discourse.slicer.org/t/only-a-single-slice-is-loading-for-cine-mri/18933)

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**Author:** [@arjmarj](https://discourse.slicer.org/u/arjmarj)\
**Replies:** 3\
**Last updated:** [July 27, 2021, 3:42pm UTC](https://discourse.slicer.org/t/only-a-single-slice-is-loading-for-cine-mri/18933 "2021-07-27T15:42:15Z")

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Hi, I am trying to load a cine cardiac MRI into slicer using the DICOM module. Unfortunately it is not loading and I am having the same problem across all patients. I have tried using the DICOME patcher function but th…

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## [Registration of multiple sequences of CTP images together](https://discourse.slicer.org/t/registration-of-multiple-sequences-of-ctp-images-together/18808)

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**Author:** [@Dhruba](https://discourse.slicer.org/u/Dhruba)\
**Replies:** 1\
**Last updated:** [July 20, 2021, 6:53pm UTC](https://discourse.slicer.org/t/registration-of-multiple-sequences-of-ctp-images-together/18808 "2021-07-20T18:53:43Z")

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Hi, I want to register my CTP data. It has 28 time series per patient. I want to register all 27 series at once with 1 series as fixed image volume. Is it possible to do so in slicer? In General Registration (BRAINS)…

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## [Slice Intersection Thickness](https://discourse.slicer.org/t/slice-intersection-thickness/18932)

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**Author:** [@jasmine-lou](https://discourse.slicer.org/u/jasmine-lou)\
**Replies:** 2\
**Last updated:** [July 26, 2021, 9:24pm UTC](https://discourse.slicer.org/t/slice-intersection-thickness/18932 "2021-07-26T21:24:04Z")

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Hi everyone! Is there any way that I could increase the slice intersection thickness? Right now I have the default red, green, and yellow crosshairs on my CTs but they appear very thin and can be hard to see. Can those …

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## [model to model distance question](https://discourse.slicer.org/t/model-to-model-distance-question/18878)

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**Author:** [@byli2223](https://discourse.slicer.org/u/byli2223)\
**Replies:** 1\
**Last updated:** [July 26, 2021, 8:28am UTC](https://discourse.slicer.org/t/model-to-model-distance-question/18878 "2021-07-26T08:28:22Z")

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Operating system: Windows Slicer version: SlicerSALT 3.0.0 For the corresponding point mode, is there any way we can get the information about which pair of points on the two models were considered corresponding? I do…

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## [Is there a way to make the edges of the model smoother](https://discourse.slicer.org/t/is-there-a-way-to-make-the-edges-of-the-model-smoother/18922)

<div class="topic-metadata">

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 1\
**Last updated:** [July 26, 2021, 3:22am UTC](https://discourse.slicer.org/t/is-there-a-way-to-make-the-edges-of-the-model-smoother/18922 "2021-07-26T03:22:36Z")

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Hello everyone ! when I cut the edge of the model, I used the scissors tool in SE, but the trajectory of the scissors is generated by the movement of the mouse, so the edges of the model are not neat. Is there a way t…

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## [Elastix Registration Problem by registration of two CT Scans with completely different Gray Values and artifacts](https://discourse.slicer.org/t/elastix-registration-problem-by-registration-of-two-ct-scans-with-completely-different-gray-values-and-artifacts/18910)

<div class="topic-metadata">

**Author:** [@Solli](https://discourse.slicer.org/u/Solli)\
**Replies:** 5\
**Last updated:** [July 25, 2021, 6:08pm UTC](https://discourse.slicer.org/t/elastix-registration-problem-by-registration-of-two-ct-scans-with-completely-different-gray-values-and-artifacts/18910 "2021-07-25T18:08:30Z")

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Hello, I have two CT Datasets of a 3D Printed Skull Phantom. One CT Scan is from a clinical CT scanner and the second scan is from an industrial CT scanner. The scan from the clinical CT has Hounsfield values between -1…

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## [How to measure volumes in structural brain MRI?](https://discourse.slicer.org/t/how-to-measure-volumes-in-structural-brain-mri/18918)

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**Author:** [@aalaa12341](https://discourse.slicer.org/u/aalaa12341)\
**Replies:** 1\
**Last updated:** [July 25, 2021, 3:25pm UTC](https://discourse.slicer.org/t/how-to-measure-volumes-in-structural-brain-mri/18918 "2021-07-25T15:25:54Z")

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How to measure volumes in structural brain MRI? can you tell me step by step how can i measure brain volume in slicer 4.11 from structural mri

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## [How to undo Smoothing](https://discourse.slicer.org/t/how-to-undo-smoothing/18298)

<div class="topic-metadata">

**Author:** [@arezoo.movahed](https://discourse.slicer.org/u/arezoo.movahed)\
**Replies:** 5\
**Last updated:** [July 25, 2021, 3:12pm UTC](https://discourse.slicer.org/t/how-to-undo-smoothing/18298 "2021-07-25T15:12:44Z")

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Hello, Is there any possibility to undo smoothing after saving? I created a human heart model and used smoothing, but we changed our strategy and I need the rough model now. Your prompt response is highly appreciated. …

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## [SimpleFilter Image Error Type](https://discourse.slicer.org/t/simplefilter-image-error-type/18906)

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**Author:** [@MachadoL](https://discourse.slicer.org/u/MachadoL)\
**Replies:** 3\
**Last updated:** [July 25, 2021, 3:06pm UTC](https://discourse.slicer.org/t/simplefilter-image-error-type/18906 "2021-07-25T15:06:30Z")

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Hello everyone, I’d like to share a problem I am recurrently facing. I load an image and try to use some simple filters inside ITKSImpleFilters modue. I try to convert, rescale and many other transformations over the …

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