# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=326

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

**Page:** 327

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## [Surface Cut Problem](https://discourse.slicer.org/t/surface-cut-problem/13024)

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**Author:** [@Georgescu\_George](https://discourse.slicer.org/u/Georgescu_George)\
**Replies:** 2\
**Last updated:** [August 17, 2020, 5:44am UTC](https://discourse.slicer.org/t/surface-cut-problem/13024 "2020-08-17T05:44:45Z")

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Operating system: Windows 10 Slicer version: Latest version Expected behavior: Being able to place fiducials in surface cut module Actual behavior: i cannot use the surface cut module because the box for selecting fid…

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## [Setting fixed and moving landmarks for fiducial registration](https://discourse.slicer.org/t/setting-fixed-and-moving-landmarks-for-fiducial-registration/13031)

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**Author:** [@Catriona\_Farquharson](https://discourse.slicer.org/u/Catriona_Farquharson)\
**Replies:** 0\
**Last updated:** [August 17, 2020, 3:40am UTC](https://discourse.slicer.org/t/setting-fixed-and-moving-landmarks-for-fiducial-registration/13031 "2020-08-17T03:40:52Z")

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When I try to use fiducial registration I always get the same error message: Fiducial Registration standard error: Fixed and moving landmark lists must be of the same size and contain at least one point At least 3 fix…

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## [N4ITK MRI Bias Field Correction input file type?](https://discourse.slicer.org/t/n4itk-mri-bias-field-correction-input-file-type/13008)

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**Author:** [@sgonzalez122](https://discourse.slicer.org/u/sgonzalez122)\
**Replies:** 3\
**Last updated:** [August 16, 2020, 9:21pm UTC](https://discourse.slicer.org/t/n4itk-mri-bias-field-correction-input-file-type/13008 "2020-08-16T21:21:22Z")

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Operating system: macOS Catalina Slicer version: none Expected behavior: Output a volume in Nifti format Actual behavior: none Hi there, I am new to 3D slicer and was wondering if it’s N4ITK Bias Field Correction mod…

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## [Display text in a 3D view](https://discourse.slicer.org/t/display-text-in-a-3d-view/13018)

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**Author:** [@Pablo\_Javier](https://discourse.slicer.org/u/Pablo_Javier)\
**Replies:** 5\
**Last updated:** [August 16, 2020, 5:17pm UTC](https://discourse.slicer.org/t/display-text-in-a-3d-view/13018 "2020-08-16T17:17:29Z")

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I want to display text in a 3D View, but I don’t want to use the Corner Annotation Module. I would like to create a text box in a 3D View (for example as a new model). Is it possible? Thanks in advance!

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## [Extension statistics module giving an error](https://discourse.slicer.org/t/extension-statistics-module-giving-an-error/13019)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 1\
**Last updated:** [August 16, 2020, 2:31pm UTC](https://discourse.slicer.org/t/extension-statistics-module-giving-an-error/13019 "2020-08-16T14:31:43Z")

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This is r29263 on windows. I am trying to compile SlicerMorph download statistics and after a certain of data retrieval, I get this error: Retrieving package info 223/828 for extension SlicerMorph: rev 28498 downloaded…

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## [Any way to parallelize radiomics feature extraction on python?](https://discourse.slicer.org/t/any-way-to-parallelize-radiomics-feature-extraction-on-python/12968)

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**Author:** [@xlucox](https://discourse.slicer.org/u/xlucox)\
**Replies:** 4\
**Last updated:** [August 15, 2020, 11:15pm UTC](https://discourse.slicer.org/t/any-way-to-parallelize-radiomics-feature-extraction-on-python/12968 "2020-08-15T23:15:23Z")

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Hi, I’m dealing with the extraction of a large set of radiomics feature in a large set of data, It took to much running time doing it with a simple loop in Python. I wonder if there is any way to fast it up using GPU. O…

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## [Slice volume synchronized recording](https://discourse.slicer.org/t/slice-volume-synchronized-recording/13000)

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**Author:** [@sreyankar](https://discourse.slicer.org/u/sreyankar)\
**Replies:** 1\
**Last updated:** [August 14, 2020, 10:36pm UTC](https://discourse.slicer.org/t/slice-volume-synchronized-recording/13000 "2020-08-14T22:36:29Z")

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Operating system: Windows 10 Slicer version: 4.11.0 Expected behavior: Want to record the axial slices going through the reconstructed volume as a movie. Actual behavior: Can only do it manually by moving the axial sl…

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## [Bug Tracker link from Slicer Help menu is dead](https://discourse.slicer.org/t/bug-tracker-link-from-slicer-help-menu-is-dead/13002)

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**Author:** [@mikebind](https://discourse.slicer.org/u/mikebind)\
**Replies:** 1\
**Last updated:** [August 14, 2020, 6:38pm UTC](https://discourse.slicer.org/t/bug-tracker-link-from-slicer-help-menu-is-dead/13002 "2020-08-14T18:38:51Z")

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Using 4.11.0-2020-08-10. Clicking on the Help menu inside Slicer, then “Report a bug” advises the user to post a new topic to the Slicer forum, or “submit a bug report to the 3D Slicer bugtracker”. Clicking on the link…

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## [How to draw a ROI and copy to use same size and shape to measure FA](https://discourse.slicer.org/t/how-to-draw-a-roi-and-copy-to-use-same-size-and-shape-to-measure-fa/13004)

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**Author:** [@ecgt](https://discourse.slicer.org/u/ecgt)\
**Replies:** 0\
**Last updated:** [August 14, 2020, 6:34pm UTC](https://discourse.slicer.org/t/how-to-draw-a-roi-and-copy-to-use-same-size-and-shape-to-measure-fa/13004 "2020-08-14T18:34:30Z")

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Operating system:Windows 10 Slicer version:4.11 Expected behavior: Actual behavior:

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## [Using Slicer and Slicer Modules from Command-Line](https://discourse.slicer.org/t/using-slicer-and-slicer-modules-from-command-line/8162)

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**Author:** [@matt-warkentin](https://discourse.slicer.org/u/matt-warkentin)\
**Replies:** 31\
**Last updated:** [August 14, 2020, 4:04am UTC](https://discourse.slicer.org/t/using-slicer-and-slicer-modules-from-command-line/8162 "2020-08-14T04:04:06Z")

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Hi, I am fairly expert in R and other languages, but I am admittedly relatively novice with python (though I am working to improve). I think I am conceptually unclear on what it means to run Slicer/Slicer modules from …

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## [Open files with Overlay Plane tags set](https://discourse.slicer.org/t/open-files-with-overlay-plane-tags-set/12990)

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**Author:** [@Roman\_Kovtuh](https://discourse.slicer.org/u/Roman_Kovtuh)\
**Replies:** 3\
**Last updated:** [August 14, 2020, 3:14am UTC](https://discourse.slicer.org/t/open-files-with-overlay-plane-tags-set/12990 "2020-08-14T03:14:08Z")

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System: Linux Ubuntu 18.04 Slicer version: 4.10.2 r28257 Expected behaviour: Slicer opens files in Scalar Overlay mode and shows overlay. Current behaviour: Opening DICOM file from pydicom library tests that contains …

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## [Separate and combine images/views/planes from different sequences](https://discourse.slicer.org/t/separate-and-combine-images-views-planes-from-different-sequences/12989)

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**Author:** [@Fluvio\_Lobo](https://discourse.slicer.org/u/Fluvio_Lobo)\
**Replies:** 1\
**Last updated:** [August 14, 2020, 12:36am UTC](https://discourse.slicer.org/t/separate-and-combine-images-views-planes-from-different-sequences/12989 "2020-08-14T00:36:06Z")

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Hello, I am working with three ‘haste’ sequences where each sequence has the highest resolution on 1/3 planes/views. I.e. one of the sequences has better coronal images than the other two and so on. Is it possible to ex…

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## [Unable to open Scalar overlay](https://discourse.slicer.org/t/unable-to-open-scalar-overlay/12991)

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**Author:** [@Roman\_Kovtuh](https://discourse.slicer.org/u/Roman_Kovtuh)\
**Replies:** 0\
**Last updated:** [August 14, 2020, 12:22am UTC](https://discourse.slicer.org/t/unable-to-open-scalar-overlay/12991 "2020-08-14T00:22:21Z")

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Operating system: Linux 4.15.0-112-generic #113-Ubuntu 18.04 Slicer version: 4.10.2 r28257 Expected behavior: Open file \[1\] with Overlay Plane tags set and show stored overlay. Actual behavior: When opening such file …

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## [Registration CT MRI](https://discourse.slicer.org/t/registration-ct-mri/11190)

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**Author:** [@sfglio](https://discourse.slicer.org/u/sfglio)\
**Replies:** 10\
**Last updated:** [August 14, 2020, 12:21am UTC](https://discourse.slicer.org/t/registration-ct-mri/11190 "2020-08-14T00:21:28Z")

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I want to reg CT (moving) to MRI (fixed): I have cropped the volume to the ROI in both volumes I have resampled both images to the same voxel size I have initially transformed the CT to MRI and provided this transform …

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## [Segmentation seeds paint on multiple slices](https://discourse.slicer.org/t/segmentation-seeds-paint-on-multiple-slices/12983)

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**Author:** [@epearlstone](https://discourse.slicer.org/u/epearlstone)\
**Replies:** 6\
**Last updated:** [August 13, 2020, 7:00pm UTC](https://discourse.slicer.org/t/segmentation-seeds-paint-on-multiple-slices/12983 "2020-08-13T19:00:11Z")

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Operating system: mac Slicer version: 4.11 Expected behavior: When using paint to mark a segment in segment editor only one slice should have that painted. That mark will appear only on the edited slice until ‘grow fro…

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## [Segment statistics fail in Test with no window mode](https://discourse.slicer.org/t/segment-statistics-fail-in-test-with-no-window-mode/12976)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 1\
**Last updated:** [August 13, 2020, 6:17pm UTC](https://discourse.slicer.org/t/segment-statistics-fail-in-test-with-no-window-mode/12976 "2020-08-13T18:17:25Z")

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I have a case where I have several segmentations and I need to test each of them in no window mode (test mode) The normal way to do this is to disable all of them and the enable just the one I am testing, this is done w…

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## [Segmentation of Maxillary Teeth from MRI ](https://discourse.slicer.org/t/segmentation-of-maxillary-teeth-from-mri/12979)

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**Author:** [@Maddy\_Gamble](https://discourse.slicer.org/u/Maddy_Gamble)\
**Replies:** 1\
**Last updated:** [August 13, 2020, 4:12pm UTC](https://discourse.slicer.org/t/segmentation-of-maxillary-teeth-from-mri/12979 "2020-08-13T16:12:52Z")

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Operating system: Mac Slicer version: 4.10.2 Expected behavior: Actual behavior: Hello 3-D Slicer community, I would like to use this particular software to segment maxillary teeth from an MRI scan. The problem is t…

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## [Issue on exporting DICOM images](https://discourse.slicer.org/t/issue-on-exporting-dicom-images/12893)

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**Author:** [@schumi00](https://discourse.slicer.org/u/schumi00)\
**Replies:** 4\
**Last updated:** [August 13, 2020, 3:49pm UTC](https://discourse.slicer.org/t/issue-on-exporting-dicom-images/12893 "2020-08-13T15:49:09Z")

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Hi, I am trying to load images in nifti format in to Slicer and then export them into DICOM format. I could export images with DICOM module. However, after reloading the exported images back to Slicer, it seems that s…

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## [New module: OpenDose3D](https://discourse.slicer.org/t/new-module-opendose3d/12963)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 5\
**Last updated:** [August 13, 2020, 1:40pm UTC](https://discourse.slicer.org/t/new-module-opendose3d/12963 "2020-08-13T13:40:35Z")

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Hello We have released a beta test of our OpenDose3D extension. It is available in the last nightly using extension manager. We expect it to have bugs and we need to solve every bug you find in this stage. Please repor…

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## [Dell Precision 7540 display problem](https://discourse.slicer.org/t/dell-precision-7540-display-problem/12973)

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**Author:** [@sjtu](https://discourse.slicer.org/u/sjtu)\
**Replies:** 1\
**Last updated:** [August 13, 2020, 1:13pm UTC](https://discourse.slicer.org/t/dell-precision-7540-display-problem/12973 "2020-08-13T13:13:30Z")

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Hi We have a new Dell Precision 7540 mobile workstation and we just installed 3DSlicer. However, the screen was not displayed properly when we opened the 3DSlicer application. We don’t have this display problem with o…

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## [SlicerDcm2nii error](https://discourse.slicer.org/t/slicerdcm2nii-error/12902)

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**Author:** [@KIM\_TY](https://discourse.slicer.org/u/KIM_TY)\
**Replies:** 17\
**Last updated:** [August 13, 2020, 10:35am UTC](https://discourse.slicer.org/t/slicerdcm2nii-error/12902 "2020-08-13T10:35:38Z")

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Hi Thank you for the SlicerDMR Quick Feedback. I felt that the usefulness of the forum was great. This is another error report. Error for SlicerDcm2nii among Diffusion-related extension apps. If 60% is reached while…

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## [Error: Invalid coordinateSystemFlag value](https://discourse.slicer.org/t/error-invalid-coordinatesystemflag-value/12957)

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**Author:** [@szhang](https://discourse.slicer.org/u/szhang)\
**Replies:** 3\
**Last updated:** [August 12, 2020, 7:23pm UTC](https://discourse.slicer.org/t/error-invalid-coordinatesystemflag-value/12957 "2020-08-12T19:23:33Z")

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Hello In Error log, there comes an error showing “VTK: Invalid coordinateSystemFlag value:0”, how to fix this, by coordinate system conversion? It looks like coordinateSystemFlag = 0 for RAS system which is used by Sl…

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## [Can I save the scene as a html?](https://discourse.slicer.org/t/can-i-save-the-scene-as-a-html/12906)

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**Author:** [@timeanddoctor](https://discourse.slicer.org/u/timeanddoctor)\
**Replies:** 12\
**Last updated:** [August 12, 2020, 4:36pm UTC](https://discourse.slicer.org/t/can-i-save-the-scene-as-a-html/12906 "2020-08-12T16:36:41Z")

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I tend to share some “dicom” files as the “html” file. So it could be opened in Chrome. Can I save the scene as a html file(not include the 3d view)? Or, is there any python lib could deal with it?

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## [QAccessibleTable warnings in preview release clean install](https://discourse.slicer.org/t/qaccessibletable-warnings-in-preview-release-clean-install/12953)

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**Author:** [@mikebind](https://discourse.slicer.org/u/mikebind)\
**Replies:** 4\
**Last updated:** [August 12, 2020, 3:15pm UTC](https://discourse.slicer.org/t/qaccessibletable-warnings-in-preview-release-clean-install/12953 "2020-08-12T15:15:01Z")

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Problem report for Slicer 4.11.0-2020-08-10 win-amd64: Expected behavior: Clean install of preview release should not generate warnings/errors on startup Actual behavior: Many instances of the warning QAccessibleTable…

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## [Question about PET Pyradiomics Minima](https://discourse.slicer.org/t/question-about-pet-pyradiomics-minima/12959)

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**Author:** [@tyusufaly](https://discourse.slicer.org/u/tyusufaly)\
**Replies:** 1\
**Last updated:** [August 12, 2020, 12:50pm UTC](https://discourse.slicer.org/t/question-about-pet-pyradiomics-minima/12959 "2020-08-12T12:50:13Z")

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Hello, I am having trouble interpreting the Pyradiomics output when applied to PET dicom images, in particular, the values of the ‘diagnostic-original’ features related to the minima, maxima, and range. I am doing the p…

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## [Can't load open3d](https://discourse.slicer.org/t/cant-load-open3d/12950)

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**Author:** [@lokpoon](https://discourse.slicer.org/u/lokpoon)\
**Replies:** 7\
**Last updated:** [August 12, 2020, 12:35am UTC](https://discourse.slicer.org/t/cant-load-open3d/12950 "2020-08-12T00:35:01Z")

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Hi, I’m just starting to get Slicer on my mac (os 10.13) ready for the SlicerMorph workshop. When I load ALPACA it prompts me to install open3d. After it is done Slicer crashes and quit. I tried to uninstall and reinsta…

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## [Viewer blanks out when using windows remote desktop ](https://discourse.slicer.org/t/viewer-blanks-out-when-using-windows-remote-desktop/12761)

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**Author:** [@Krishna\_Nanda](https://discourse.slicer.org/u/Krishna_Nanda)\
**Replies:** 10\
**Last updated:** [August 11, 2020, 7:55pm UTC](https://discourse.slicer.org/t/viewer-blanks-out-when-using-windows-remote-desktop/12761 "2020-08-11T19:55:55Z")

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Hello, I have been trying to view an image series on slicer 4.10.2 via remote desktop. The patient list and other parts of the GUI all appear ok except for the image series in the viewer. The viewer goes blank (dark) wh…

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## [segment to numpy array](https://discourse.slicer.org/t/segment-to-numpy-array/12942)

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**Author:** [@gabrielzhu1977](https://discourse.slicer.org/u/gabrielzhu1977)\
**Replies:** 1\
**Last updated:** [August 11, 2020, 4:05pm UTC](https://discourse.slicer.org/t/segment-to-numpy-array/12942 "2020-08-11T16:05:51Z")

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Hello All, I need to study the density histogram of ROI on CT so I am trying to get a numpy array out of a segment. But when I convert segmentation node to labelmap node and then to numpy array, I only have binary arra…

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## [Exporting Rigid Registration result as Transform results in strange errors](https://discourse.slicer.org/t/exporting-rigid-registration-result-as-transform-results-in-strange-errors/12830)

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**Author:** [@PfeifferMIcha](https://discourse.slicer.org/u/PfeifferMIcha)\
**Replies:** 2\
**Last updated:** [August 11, 2020, 3:25pm UTC](https://discourse.slicer.org/t/exporting-rigid-registration-result-as-transform-results-in-strange-errors/12830 "2020-08-11T15:25:42Z")

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Hi, I rigidly registered two images using the Landmark-Based registration. I chose “Affine Registration” as the Registration Type and “Rigid” as Registration Mode. The resulting registration looks good, so I tried to ex…

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## [Register MRI and histology](https://discourse.slicer.org/t/register-mri-and-histology/12851)

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**Author:** [@KatS](https://discourse.slicer.org/u/KatS)\
**Replies:** 7\
**Last updated:** [August 11, 2020, 1:36pm UTC](https://discourse.slicer.org/t/register-mri-and-histology/12851 "2020-08-11T13:36:22Z")

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Dear Slicer community, I would like to register MRI to histology data to compare tumor volumes retrieved from MRI-segmentation with groundtruth. I have an isotropic T2w 3D (Image dimensions 100 200 120, Image spacing 0…

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