# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=355

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

**Page:** 356

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## [Adding body to a Fetus](https://discourse.slicer.org/t/adding-body-to-a-fetus/10031)

<div class="topic-metadata">

**Author:** [@Pieter](https://discourse.slicer.org/u/Pieter)\
**Replies:** 2\
**Last updated:** [January 30, 2020, 8:00pm UTC](https://discourse.slicer.org/t/adding-body-to-a-fetus/10031 "2020-01-30T20:00:49Z")

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HI there, I have these fetus rendering but I am trying to close the head of the fetus so it is not just a face mask but a closed scull. IT does not have to be a complete head but at least something that is closed and loo…

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## [Display LabelMapVolumeNode After creating](https://discourse.slicer.org/t/display-labelmapvolumenode-after-creating/10037)

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**Author:** [@kleingeo](https://discourse.slicer.org/u/kleingeo)\
**Replies:** 0\
**Last updated:** [January 30, 2020, 7:27pm UTC](https://discourse.slicer.org/t/display-labelmapvolumenode-after-creating/10037 "2020-01-30T19:27:11Z")

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In Python, I create a script to create a segmentation of a vertebrae after selecting it with a fiducial marker. It works as expected, but I am unable to have the segmentation automatically display. Here is what I current…

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## [Unable to load .zraw files along with .mhd files](https://discourse.slicer.org/t/unable-to-load-zraw-files-along-with-mhd-files/10030)

<div class="topic-metadata">

**Author:** [@matt-warkentin](https://discourse.slicer.org/u/matt-warkentin)\
**Replies:** 4\
**Last updated:** [January 30, 2020, 7:13pm UTC](https://discourse.slicer.org/t/unable-to-load-zraw-files-along-with-mhd-files/10030 "2020-01-30T19:13:35Z")

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Hi all, I have been provided .zraw files and corresponding .mhd files (segmentation masks). I can load the .mhd masks into Slicer without issue. However, I am having trouble loading a .zraw file into Slicer. Based on t…

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## [Window/level and Threshold max at -10 and 10](https://discourse.slicer.org/t/window-level-and-threshold-max-at-10-and-10/10002)

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**Author:** [@Xavierb](https://discourse.slicer.org/u/Xavierb)\
**Replies:** 8\
**Last updated:** [January 30, 2020, 7:11pm UTC](https://discourse.slicer.org/t/window-level-and-threshold-max-at-10-and-10/10002 "2020-01-30T19:11:42Z")

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Hi, I am trying to manually set the min and max values for my volume, however I am unable to change the range of values below -10 and above 10 (image 1). The volume histogram also does not appear. I have attached some i…

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## [Slicer in CentOS 7.6](https://discourse.slicer.org/t/slicer-in-centos-7-6/10025)

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**Author:** [@muntahi398](https://discourse.slicer.org/u/muntahi398)\
**Replies:** 3\
**Last updated:** [January 30, 2020, 3:31pm UTC](https://discourse.slicer.org/t/slicer-in-centos-7-6/10025 "2020-01-30T15:31:11Z")

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Operating system: CentOS 7.6 Slicer version: 4.11.0 Expected behavior: Actual behavior: Data is not shown Dear people, In a server computer running CentOS 7.6, I installed Slicer1.11.0 and downloaded sample model of…

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## [vtk file superimposition](https://discourse.slicer.org/t/vtk-file-superimposition/10028)

<div class="topic-metadata">

**Author:** [@nayansi.jha](https://discourse.slicer.org/u/nayansi.jha)\
**Replies:** 2\
**Last updated:** [January 30, 2020, 2:50pm UTC](https://discourse.slicer.org/t/vtk-file-superimposition/10028 "2020-01-30T14:50:33Z")

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How can we save two vtk superimposed files( as a single file)? For example- right condyle models of the same patient taken at two different time points.

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## [Error with elastix registration](https://discourse.slicer.org/t/error-with-elastix-registration/10026)

<div class="topic-metadata">

**Author:** [@RadioQuest](https://discourse.slicer.org/u/RadioQuest)\
**Replies:** 1\
**Last updated:** [January 30, 2020, 2:43pm UTC](https://discourse.slicer.org/t/error-with-elastix-registration/10026 "2020-01-30T14:43:20Z")

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Running elastix with parameter file 0: “/Users/…/Downloads/Slicer.app/Contents/Extensions-27970/SlicerElastix/lib/Slicer-4.11/qt-scripted-modules/Resources/RegistrationParameters/Parameters\_Rigid.txt”. Current time: Thu…

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## [Registration - expert automated](https://discourse.slicer.org/t/registration-expert-automated/9969)

<div class="topic-metadata">

**Author:** [@RadioQuest](https://discourse.slicer.org/u/RadioQuest)\
**Replies:** 8\
**Last updated:** [January 30, 2020, 9:42am UTC](https://discourse.slicer.org/t/registration-expert-automated/9969 "2020-01-30T09:42:34Z")

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Hi I am using an Expert Automated registration module to register MR head images with CT. I need this registration so that I can use other maps that are already registered to this CT image. It seems to be working in on…

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## [Median Image Fiter - command line](https://discourse.slicer.org/t/median-image-fiter-command-line/10007)

<div class="topic-metadata">

**Author:** [@Adam1122](https://discourse.slicer.org/u/Adam1122)\
**Replies:** 2\
**Last updated:** [January 29, 2020, 9:41pm UTC](https://discourse.slicer.org/t/median-image-fiter-command-line/10007 "2020-01-29T21:41:06Z")

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Hello all, please, how can I invoke the tool MedianImageFilter through command line? My Slicer.exe is here: C:\\Program Files\\Slicer 4.10.2 and MedianImageFilter tools are here: C:\\Program Files\\Slicer 4.10.2\\lib\\Slicer-…

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## [Replace images after registration](https://discourse.slicer.org/t/replace-images-after-registration/9999)

<div class="topic-metadata">

**Author:** [@uwo27](https://discourse.slicer.org/u/uwo27)\
**Replies:** 1\
**Last updated:** [January 29, 2020, 5:19pm UTC](https://discourse.slicer.org/t/replace-images-after-registration/9999 "2020-01-29T17:19:46Z")

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Hi– Is it possible to replace my already registered grayscale histology image with the exact same image but coloured without having to redo fiducials and registration again? Thanks!

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## [Customize mouse button function](https://discourse.slicer.org/t/customize-mouse-button-function/4966)

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**Author:** [@Maciej84](https://discourse.slicer.org/u/Maciej84)\
**Replies:** 5\
**Last updated:** [January 29, 2020, 1:49pm UTC](https://discourse.slicer.org/t/customize-mouse-button-function/4966 "2020-01-29T13:49:36Z")

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Operating system: Win10 Slicer version: 4.9.0 Expected behavior: Is it possible to change the default function of the mouse buttons? In my clinical software right click and drag scrolls through the volume, while in 3D…

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## [Progamatically get slice view bounding box in RAS](https://discourse.slicer.org/t/progamatically-get-slice-view-bounding-box-in-ras/9989)

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**Author:** [@Felipe\_Silveira](https://discourse.slicer.org/u/Felipe_Silveira)\
**Replies:** 1\
**Last updated:** [January 28, 2020, 8:19pm UTC](https://discourse.slicer.org/t/progamatically-get-slice-view-bounding-box-in-ras/9989 "2020-01-28T20:19:09Z")

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Hi, I’d like to write a python script that gets the bounding box of a slice view. For example, with the attached images, I’d like to have 2 points: (-2.1, 133.1, -199.7) and (-2.1, -120.3, 178.3). Using vtkMRMLSlic…

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## [Multi-modality/label Brain Tumor segmentation](https://discourse.slicer.org/t/multi-modality-label-brain-tumor-segmentation/9977)

<div class="topic-metadata">

**Author:** [@brt2002](https://discourse.slicer.org/u/brt2002)\
**Replies:** 3\
**Last updated:** [January 28, 2020, 4:59pm UTC](https://discourse.slicer.org/t/multi-modality-label-brain-tumor-segmentation/9977 "2020-01-28T16:59:25Z")

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I’m trying to re-manually segment tumors from the BRATS dataset and attempting to follow the tutorial from here: https://www2.imm.dtu.dk/projects/BRATS2012/Jakab\_TumorSegmentation\_Manual.pdf The motivation of the tutori…

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## [AIAA NIVIDIA error when start](https://discourse.slicer.org/t/aiaa-nividia-error-when-start/9968)

<div class="topic-metadata">

**Author:** [@ahmed.elsakka](https://discourse.slicer.org/u/ahmed.elsakka)\
**Replies:** 1\
**Last updated:** [January 27, 2020, 8:07pm UTC](https://discourse.slicer.org/t/aiaa-nividia-error-when-start/9968 "2020-01-27T20:07:15Z")

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hello i have a problem using AIAA NIVIDIA TOOL FOR SEGMENTATION. when i click start to begin segmentation, an error cause slicer to expectantly close \[DEBUG\]\[Python\] 27.01.2020 15:08:03 \[Python\] (C:/Users/Split/AppData/…

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## [GTRACT Windows 10](https://discourse.slicer.org/t/gtract-windows-10/9967)

<div class="topic-metadata">

**Author:** [@Adam1122](https://discourse.slicer.org/u/Adam1122)\
**Replies:** 3\
**Last updated:** [January 27, 2020, 8:06pm UTC](https://discourse.slicer.org/t/gtract-windows-10/9967 "2020-01-27T20:06:54Z")

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Hello all, I am trying to run GTRACT programs in Slicer 4.10.2. on Windows 10. I´ve downloaded the GTRACT folder: https://github.com/BRAINSia/BRAINSTools . Please, could you advise me what next I should do to run GTRACT …

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## [Query with ROI selection](https://discourse.slicer.org/t/query-with-roi-selection/9188)

<div class="topic-metadata">

**Author:** [@RadioQuest](https://discourse.slicer.org/u/RadioQuest)\
**Replies:** 2\
**Last updated:** [January 27, 2020, 3:08pm UTC](https://discourse.slicer.org/t/query-with-roi-selection/9188 "2020-01-27T15:08:48Z")

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Hi… How can we select the ROI of the same dimension? When selecting Paint size as 3% , area is selected but these dimensions seem to change for another area/ slice when the image is zoomed. Is there any way to get fix…

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## [DICOM not viewed in Layout](https://discourse.slicer.org/t/dicom-not-viewed-in-layout/9964)

<div class="topic-metadata">

**Author:** [@Honza\_Hecko](https://discourse.slicer.org/u/Honza_Hecko)\
**Replies:** 1\
**Last updated:** [January 27, 2020, 1:14pm UTC](https://discourse.slicer.org/t/dicom-not-viewed-in-layout/9964 "2020-01-27T13:14:02Z")

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Hi, i have problem with loading DICOM series on my other laptop. When i Load the DICOM, i can see volume in the Data review but in layout windows i can´t see anything. When i use Data Probe and zoomed slice, i can see z…

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## [Problem with loading an mrml](https://discourse.slicer.org/t/problem-with-loading-an-mrml/9950)

<div class="topic-metadata">

**Author:** [@rlazol](https://discourse.slicer.org/u/rlazol)\
**Replies:** 4\
**Last updated:** [January 26, 2020, 5:12pm UTC](https://discourse.slicer.org/t/problem-with-loading-an-mrml/9950 "2020-01-26T17:12:07Z")

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Operating system: win10 Slicer version: 4.10.2 Expected behavior: Previously if we clicked onto an mrml file it loaded the entire scene - CT sequences, models, segmentations. Actual behavior: Upon loading a Slicer mrm…

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## [Identify Dicom image contrast](https://discourse.slicer.org/t/identify-dicom-image-contrast/6073)

<div class="topic-metadata">

**Author:** [@prorai](https://discourse.slicer.org/u/prorai)\
**Replies:** 1\
**Last updated:** [January 26, 2020, 4:01pm UTC](https://discourse.slicer.org/t/identify-dicom-image-contrast/6073 "2020-01-26T16:01:34Z")

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How can i identify the level of contrast in Dicom file by just reading it using python file

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## [Issues converting into stl in 3D slicer](https://discourse.slicer.org/t/issues-converting-into-stl-in-3d-slicer/9953)

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**Author:** [@Getaw\_Hassen](https://discourse.slicer.org/u/Getaw_Hassen)\
**Replies:** 1\
**Last updated:** [January 26, 2020, 6:04am UTC](https://discourse.slicer.org/t/issues-converting-into-stl-in-3d-slicer/9953 "2020-01-26T06:04:46Z")

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I could not create stl files from CT imaged. Plese advise

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## [How to set editable intensity range for individual segmentation components (each individual segment)](https://discourse.slicer.org/t/how-to-set-editable-intensity-range-for-individual-segmentation-components-each-individual-segment/9941)

<div class="topic-metadata">

**Author:** [@Vincent\_C](https://discourse.slicer.org/u/Vincent_C)\
**Replies:** 6\
**Last updated:** [January 26, 2020, 2:11am UTC](https://discourse.slicer.org/t/how-to-set-editable-intensity-range-for-individual-segmentation-components-each-individual-segment/9941 "2020-01-26T02:11:52Z")

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Hi all, How can I set an editable intensity range for individual segmentation components separately under the Masking feature in Segment Editor? For example, I have 3 segments, A, B and C, of which each I want to limit …

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## [Error Orientation image in saving volume (nrrd) to png or tiff](https://discourse.slicer.org/t/error-orientation-image-in-saving-volume-nrrd-to-png-or-tiff/9904)

<div class="topic-metadata">

**Author:** [@carlos-luque](https://discourse.slicer.org/u/carlos-luque)\
**Replies:** 4\
**Last updated:** [January 24, 2020, 10:01am UTC](https://discourse.slicer.org/t/error-orientation-image-in-saving-volume-nrrd-to-png-or-tiff/9904 "2020-01-24T10:01:02Z")

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Hello everyone, I found a issue that is when a volume saves in png or tiff, the orientation is different than the original volume orientation. I checked the IKJtoRAS matrix in module volume and it is identity matrix. …

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## [Saving to one dicom file, not in image sequence](https://discourse.slicer.org/t/saving-to-one-dicom-file-not-in-image-sequence/9803)

<div class="topic-metadata">

**Author:** [@Niels](https://discourse.slicer.org/u/Niels)\
**Replies:** 2\
**Last updated:** [January 24, 2020, 9:24am UTC](https://discourse.slicer.org/t/saving-to-one-dicom-file-not-in-image-sequence/9803 "2020-01-24T09:24:47Z")

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Sometimes I obtain dicom scans containing multiple slices in one dcm large file instead of multiple image files. Can slicer also export a volume to a single dcm file? I searched the forum on this but I cannot get a clear…

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## [Crash during DICOM conversion](https://discourse.slicer.org/t/crash-during-dicom-conversion/9881)

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**Author:** [@Stoberoth](https://discourse.slicer.org/u/Stoberoth)\
**Replies:** 2\
**Last updated:** [January 23, 2020, 4:07pm UTC](https://discourse.slicer.org/t/crash-during-dicom-conversion/9881 "2020-01-23T16:07:40Z")

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Problem report for Slicer 4.11.0-2020-01-08 win-amd64: \[please describe expected and actual behavior\] I report to you a program interrupt with the following steps : i load a DICOM file i convert this file with the cas…

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## [Qt GUI for windows tor run on macs](https://discourse.slicer.org/t/qt-gui-for-windows-tor-run-on-macs/9919)

<div class="topic-metadata">

**Author:** [@Fabi-LiU](https://discourse.slicer.org/u/Fabi-LiU)\
**Replies:** 1\
**Last updated:** [January 23, 2020, 10:51am UTC](https://discourse.slicer.org/t/qt-gui-for-windows-tor-run-on-macs/9919 "2020-01-23T10:51:29Z")

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Operating system:Windows 10 Slicer version: 4.10.1 Expected behavior: GUI to run also in MAC Actual behavior:GUI runs in windows Hello, I created a GUI using Qt (e.g. to make different windows and push-buttons) and …

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## [Loaded Files but with blank browser](https://discourse.slicer.org/t/loaded-files-but-with-blank-browser/9912)

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**Author:** [@ravi\_nataraj](https://discourse.slicer.org/u/ravi_nataraj)\
**Replies:** 1\
**Last updated:** [January 23, 2020, 12:27am UTC](https://discourse.slicer.org/t/loaded-files-but-with-blank-browser/9912 "2020-01-23T00:27:54Z")

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Hey fellow slicers, I’m pretty new at 3D slicer but I can’t seem to figure something out. I’m able to manipulate and play with the preloaded data that software offers when downloaded but I can’t seem see the files that …

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## [interrogating pixels in RT structures](https://discourse.slicer.org/t/interrogating-pixels-in-rt-structures/9809)

<div class="topic-metadata">

**Author:** [@mcjury](https://discourse.slicer.org/u/mcjury)\
**Replies:** 5\
**Last updated:** [January 22, 2020, 4:03pm UTC](https://discourse.slicer.org/t/interrogating-pixels-in-rt-structures/9809 "2020-01-22T16:03:38Z")

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Can anyone save me time? - I have spend considerable time but not found the answer to this: I have a data set comprising a set of MRI images, and a set of RT (Radiotherapy) structures. Aim - I would like to obtain the …

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## [Line Profile - 2D image](https://discourse.slicer.org/t/line-profile-2d-image/9325)

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**Author:** [@ycpan](https://discourse.slicer.org/u/ycpan)\
**Replies:** 7\
**Last updated:** [January 22, 2020, 9:25am UTC](https://discourse.slicer.org/t/line-profile-2d-image/9325 "2020-01-22T09:25:57Z")

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Hello, I have been using Dr. Lasso’s Line Profile and it has worked well for a 3D CT volume. However, when analyzing a 2D image, I kept getting a line of zeros. I am wondering if this is because each coordinate of the l…

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## [Setting window icon for floating module widget?](https://discourse.slicer.org/t/setting-window-icon-for-floating-module-widget/9819)

<div class="topic-metadata">

**Author:** [@brynpitt](https://discourse.slicer.org/u/brynpitt)\
**Replies:** 3\
**Last updated:** [January 21, 2020, 3:59pm UTC](https://discourse.slicer.org/t/setting-window-icon-for-floating-module-widget/9819 "2020-01-21T15:59:10Z")

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Operating system: Windows 10 Slicer version: 4.11 Hi all– I have created a module (using the ScriptedLoadableModule template), and I am trying to add a button to the widget GUI that sets the window to full screen. As…

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## [Extension BrainStructuresSegmenter](https://discourse.slicer.org/t/extension-brainstructuressegmenter/9896)

<div class="topic-metadata">

**Author:** [@Bester\_Quester](https://discourse.slicer.org/u/Bester_Quester)\
**Replies:** 1\
**Last updated:** [January 21, 2020, 3:48pm UTC](https://discourse.slicer.org/t/extension-brainstructuressegmenter/9896 "2020-01-21T15:48:58Z")

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Hi there, i am using slicer in my lecture. I would be inetrested whether the extension BrainStructuresSegmenter is available or how i can use it. Operating system: Windows Slicer version:4.10; 4.10.2; 4.11 (nightly) E…

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