# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=376

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

**Page:** 377

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## [Making 2D measurements of a segmentation on an individual slice](https://discourse.slicer.org/t/making-2d-measurements-of-a-segmentation-on-an-individual-slice/7886)

<div class="topic-metadata">

**Author:** [@Yozer](https://discourse.slicer.org/u/Yozer)\
**Replies:** 4\
**Last updated:** [August 6, 2019, 4:10pm UTC](https://discourse.slicer.org/t/making-2d-measurements-of-a-segmentation-on-an-individual-slice/7886 "2019-08-06T16:10:28Z")

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Hi everybody, I am currently developing an extension for 3D Slicer. As part of this extension, I need to programatically make measurements of a segmentation on each individual layer of my volume (ie. vertical/horizontal…

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## [Cannot extract features from MRI image](https://discourse.slicer.org/t/cannot-extract-features-from-mri-image/7806)

<div class="topic-metadata">

**Author:** [@TingtingYu](https://discourse.slicer.org/u/TingtingYu)\
**Replies:** 6\
**Last updated:** [August 6, 2019, 7:51am UTC](https://discourse.slicer.org/t/cannot-extract-features-from-mri-image/7806 "2019-08-06T07:51:15Z")

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Hi, I tried to extract features from MRI volume using Radiomics module but it did not work. However, features can be extracted from CT volume. I use the same contour as input region.May I know why feature cannot be extr…

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## [Segment Comparison](https://discourse.slicer.org/t/segment-comparison/7874)

<div class="topic-metadata">

**Author:** [@acalles2307](https://discourse.slicer.org/u/acalles2307)\
**Replies:** 3\
**Last updated:** [August 6, 2019, 3:08am UTC](https://discourse.slicer.org/t/segment-comparison/7874 "2019-08-06T03:08:46Z")

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Hi, I’m new using 3d slicer, I’m a radiation oncologist. Recently I am carrying out a project in which I intend to compare the contours of radiotherapy, where I basically want to compare the use or improvement of a new l…

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## [Mask scalar volume vs masking within the registration](https://discourse.slicer.org/t/mask-scalar-volume-vs-masking-within-the-registration/7835)

<div class="topic-metadata">

**Author:** [@labixin](https://discourse.slicer.org/u/labixin)\
**Replies:** 2\
**Last updated:** [August 6, 2019, 2:46am UTC](https://discourse.slicer.org/t/mask-scalar-volume-vs-masking-within-the-registration/7835 "2019-08-06T02:46:06Z")

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Hi everyone, I am now using Slicer 4.11.0 and want to register pre-surgical CT to post-surgical CT (breast). The two images were acquired using different CT table (curved vs flat), and there are some metal markers on th…

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## [Moving polydata (opened .stl files) around using transforms](https://discourse.slicer.org/t/moving-polydata-opened-stl-files-around-using-transforms/7887)

<div class="topic-metadata">

**Author:** [@Renjie\_Zhu](https://discourse.slicer.org/u/Renjie_Zhu)\
**Replies:** 2\
**Last updated:** [August 5, 2019, 8:58pm UTC](https://discourse.slicer.org/t/moving-polydata-opened-stl-files-around-using-transforms/7887 "2019-08-05T20:58:37Z")

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Operating system: Ubuntu 18.04 Slicer version: 4.8.1 Expected behavior: Move an .stl polydata around in the 3d view Actual behavior: Hi, I want to create an overlay of a needle both on the 3d view and the 2d slices. …

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## [Merging CT-views ](https://discourse.slicer.org/t/merging-ct-views/7862)

<div class="topic-metadata">

**Author:** [@HFNGL](https://discourse.slicer.org/u/HFNGL)\
**Replies:** 1\
**Last updated:** [August 5, 2019, 7:54pm UTC](https://discourse.slicer.org/t/merging-ct-views/7862 "2019-08-05T19:54:52Z")

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I just got three different files for one CT-scan. Each one contains a different view so there is one file containing the sagittal view in high res, one for axial and one for coronal. I want slicer to use all of these fi…

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## [Slicer DICOM import performance](https://discourse.slicer.org/t/slicer-dicom-import-performance/922)

<div class="topic-metadata">

**Author:** [@fedorov](https://discourse.slicer.org/u/fedorov)\
**Replies:** 24\
**Last updated:** [August 5, 2019, 2:00pm UTC](https://discourse.slicer.org/t/slicer-dicom-import-performance/922 "2019-08-05T14:00:26Z")

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Today I tried MITK, and I noticed that DICOM import operation is order of magnitude faster there than in Slicer. I tested this specific dataset: https://bit.ly/QIN-HN-137 on the same Linux system with the latest MITK pa…

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## [Sequence registration](https://discourse.slicer.org/t/sequence-registration/7864)

<div class="topic-metadata">

**Author:** [@sarvpriya1985](https://discourse.slicer.org/u/sarvpriya1985)\
**Replies:** 3\
**Last updated:** [August 5, 2019, 4:04am UTC](https://discourse.slicer.org/t/sequence-registration/7864 "2019-08-05T04:04:29Z")

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Hi, Is there any change in sequence registration? Earlier, to register a 4d cardiac sequence it used to take me a minute or so (after doing cropping, isotropic spacing 1.7x), but now even after 20 minutes, it is still n…

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## [Could I see different staff in different 3D window？](https://discourse.slicer.org/t/could-i-see-different-staff-in-different-3d-window/7873)

<div class="topic-metadata">

**Author:** [@Zhao\_Su](https://discourse.slicer.org/u/Zhao_Su)\
**Replies:** 3\
**Last updated:** [August 5, 2019, 12:33am UTC](https://discourse.slicer.org/t/could-i-see-different-staff-in-different-3d-window/7873 "2019-08-05T00:33:01Z")

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like i want one window shows the man’s blood vessel and another shows the skull.

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## [Adding .VP file in scene](https://discourse.slicer.org/t/adding-vp-file-in-scene/7867)

<div class="topic-metadata">

**Author:** [@sarvpriya1985](https://discourse.slicer.org/u/sarvpriya1985)\
**Replies:** 1\
**Last updated:** [August 5, 2019, 12:04am UTC](https://discourse.slicer.org/t/adding-vp-file-in-scene/7867 "2019-08-05T00:04:44Z")

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Hi, I have .VP file that i want to add to a volume rendered scene and use the file’s transfer function (it was modified for making blood transparent). How can I make use of it for a new volume rendered scene. I am tryin…

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## [Set maximum module width and other layout options](https://discourse.slicer.org/t/set-maximum-module-width-and-other-layout-options/7853)

<div class="topic-metadata">

**Author:** [@Prashant\_Pandey](https://discourse.slicer.org/u/Prashant_Pandey)\
**Replies:** 3\
**Last updated:** [August 5, 2019, 12:02am UTC](https://discourse.slicer.org/t/set-maximum-module-width-and-other-layout-options/7853 "2019-08-05T00:02:28Z")

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Slicer 4.10.2 I’m writing a scriptable module, and by default the width of the module is too large and it takes up too much of the screen on my laptop. Is there a way to set the overall maximum layout for the complete m…

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## [Mask volume- segment editor](https://discourse.slicer.org/t/mask-volume-segment-editor/7808)

<div class="topic-metadata">

**Author:** [@Melanie](https://discourse.slicer.org/u/Melanie)\
**Replies:** 11\
**Last updated:** [August 4, 2019, 1:37pm UTC](https://discourse.slicer.org/t/mask-volume-segment-editor/7808 "2019-08-04T13:37:54Z")

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Hi all I have tried masking a volume with segment editor. Can I completely erase the masked volume , so that unmasked bit remains. I want to use elastic registration on the unmasked volume. But as it remains masked, it’…

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## [Convert stl to segmentation and use effect of Segment Editor](https://discourse.slicer.org/t/convert-stl-to-segmentation-and-use-effect-of-segment-editor/7857)

<div class="topic-metadata">

**Author:** [@Jmarcs](https://discourse.slicer.org/u/Jmarcs)\
**Replies:** 1\
**Last updated:** [August 3, 2019, 12:33pm UTC](https://discourse.slicer.org/t/convert-stl-to-segmentation-and-use-effect-of-segment-editor/7857 "2019-08-03T12:33:48Z")

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I would like to convert stl (that i have imported in 3dslicer) to segmentation and use effect of SEGMENT EDITOR I want the same accurancy and quality that my stl file Is it possible Please show me the way to do it bes…

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## [Error with flood fill in the nightly](https://discourse.slicer.org/t/error-with-flood-fill-in-the-nightly/7814)

<div class="topic-metadata">

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 4\
**Last updated:** [August 2, 2019, 11:18pm UTC](https://discourse.slicer.org/t/error-with-flood-fill-in-the-nightly/7814 "2019-08-02T23:18:52Z")

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I am getting this error when I try to use the flood fill with the editable intensity range option enabled with the MRHead.nrrd. Things work fine when the editable intensity range is unchecked. Switch to module: “Segmen…

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## [Align 2 segment 1 stl and 1 segment](https://discourse.slicer.org/t/align-2-segment-1-stl-and-1-segment/7818)

<div class="topic-metadata">

**Author:** [@Jmarcs](https://discourse.slicer.org/u/Jmarcs)\
**Replies:** 6\
**Last updated:** [August 3, 2019, 2:05am UTC](https://discourse.slicer.org/t/align-2-segment-1-stl-and-1-segment/7818 "2019-08-03T02:05:30Z")

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Is there a solution to align 2 objects (1 STL IMPORT and 1 segment )with a lot of acurate Maybe an extention. thanks a lot for your advice jean-marc

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## [scalar volume error when i open DICOM file.](https://discourse.slicer.org/t/scalar-volume-error-when-i-open-dicom-file/7838)

<div class="topic-metadata">

**Author:** [@Byung\_Su\_Kim](https://discourse.slicer.org/u/Byung_Su_Kim)\
**Replies:** 3\
**Last updated:** [August 3, 2019, 12:22am UTC](https://discourse.slicer.org/t/scalar-volume-error-when-i-open-dicom-file/7838 "2019-08-03T00:22:29Z")

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When I open DICOM file, ‘could not load: 900: Unnamed series as a Scalar Volume’ error pops up. It pops up when I open DICOM made by specific radiography equipment. It’s not a anonymous DICOM. I have to open that DICOM…

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## [Markups are not recognized for registration](https://discourse.slicer.org/t/markups-are-not-recognized-for-registration/7850)

<div class="topic-metadata">

**Author:** [@Christina](https://discourse.slicer.org/u/Christina)\
**Replies:** 3\
**Last updated:** [August 2, 2019, 11:22pm UTC](https://discourse.slicer.org/t/markups-are-not-recognized-for-registration/7850 "2019-08-02T23:22:17Z")

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Hello Slicer support, For some reason on my desktop computer, there is a problem with recognizing the markups for registration. I tried using both Slicer 4.10.1 and 4.10.2 (the stable versions). This issue has never hap…

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## [Segmentation effects crashing Slicer](https://discourse.slicer.org/t/segmentation-effects-crashing-slicer/7474)

<div class="topic-metadata">

**Author:** [@smrolfe](https://discourse.slicer.org/u/smrolfe)\
**Replies:** 6\
**Last updated:** [August 2, 2019, 3:58pm UTC](https://discourse.slicer.org/t/segmentation-effects-crashing-slicer/7474 "2019-08-02T15:58:02Z")

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Hello, I’m using the preview version of Slicer to do a segmentation on a 2.6 GB micro-CT scan saved as a TIF. I can do a simple segmentation, but when I try to apply the mask or split volume effect, the Slicer applicati…

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## [PETTumorSegmentationEffect](https://discourse.slicer.org/t/pettumorsegmentationeffect/7389)

<div class="topic-metadata">

**Author:** [@Mgi](https://discourse.slicer.org/u/Mgi)\
**Replies:** 13\
**Last updated:** [August 2, 2019, 1:57pm UTC](https://discourse.slicer.org/t/pettumorsegmentationeffect/7389 "2019-08-02T13:57:50Z")

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Operating system: Windows Slicer version: 4.10.2 In my slicer version there isn´t the “PETTumorSegmentationEffect” recommended by the wiki for segmentation in PET images. Another one, my image of PET display with back…

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## [Normalization SUVPET](https://discourse.slicer.org/t/normalization-suvpet/7777)

<div class="topic-metadata">

**Author:** [@Mgi](https://discourse.slicer.org/u/Mgi)\
**Replies:** 8\
**Last updated:** [August 2, 2019, 2:38am UTC](https://discourse.slicer.org/t/normalization-suvpet/7777 "2019-08-02T02:38:21Z")

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Dear, How to normalize some PET images by SUVmax using the PETDICOM extension?

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## [Workflow for selecting slices in MRI containing tumor](https://discourse.slicer.org/t/workflow-for-selecting-slices-in-mri-containing-tumor/7832)

<div class="topic-metadata">

**Author:** [@bit2002](https://discourse.slicer.org/u/bit2002)\
**Replies:** 1\
**Last updated:** [August 1, 2019, 11:07am UTC](https://discourse.slicer.org/t/workflow-for-selecting-slices-in-mri-containing-tumor/7832 "2019-08-01T11:07:12Z")

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Operating system: Win 10 Slicer version: 4.10 I’m a true imaging newbie here. I have roughly 260 patients with MRIs of brain tumors. I’m trying to obtain high quality jpeg files of 3 slices containing the largest amoun…

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## [Matlab Module step-by-step debugging not working](https://discourse.slicer.org/t/matlab-module-step-by-step-debugging-not-working/7821)

<div class="topic-metadata">

**Author:** [@Prashant\_Pandey](https://discourse.slicer.org/u/Prashant_Pandey)\
**Replies:** 6\
**Last updated:** [August 1, 2019, 4:00am UTC](https://discourse.slicer.org/t/matlab-module-step-by-step-debugging-not-working/7821 "2019-08-01T04:00:47Z")

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Using Windows 10, Slicer 4.10.2, MATLAB 2018a Expected behavior: Custom Matlab module execution stops at breakpoint What happens: Module execution is not affected by breakpoints I read the instructions here https://ww…

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## [PK Modelling Module Extension- Missing?](https://discourse.slicer.org/t/pk-modelling-module-extension-missing/7803)

<div class="topic-metadata">

**Author:** [@madeline](https://discourse.slicer.org/u/madeline)\
**Replies:** 7\
**Last updated:** [August 1, 2019, 2:56am UTC](https://discourse.slicer.org/t/pk-modelling-module-extension-missing/7803 "2019-08-01T02:56:59Z")

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Hi, Just wondering if anyone can help me locate the PK Modelling Module in the latest 4.11.0 Slicer update? I have been using the module for analysis for a few months and recently re-downloaded the software on a new ha…

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## [New feature: Search and filter in segments table](https://discourse.slicer.org/t/new-feature-search-and-filter-in-segments-table/7827)

<div class="topic-metadata">

**Author:** [@Sunderlandkyl](https://discourse.slicer.org/u/Sunderlandkyl)\
**Replies:** 0\
**Last updated:** [July 31, 2019, 3:08pm UTC](https://discourse.slicer.org/t/new-feature-search-and-filter-in-segments-table/7827 "2019-07-31T15:08:48Z")

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Previously, one of the main obstacles to using the segmentations module was that it was difficult to navigate through the table to find a specific segment. With the addition of the filter bar, it is now easier to use se…

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## [Mixing Modules, and Extensions](https://discourse.slicer.org/t/mixing-modules-and-extensions/7596)

<div class="topic-metadata">

**Author:** [@jazlynn21100](https://discourse.slicer.org/u/jazlynn21100)\
**Replies:** 2\
**Last updated:** [July 16, 2019, 4:55pm UTC](https://discourse.slicer.org/t/mixing-modules-and-extensions/7596 "2019-07-16T16:55:56Z")

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I’ve been digging on the internet for just over a week to try and figure out how to merge modules. From what I have found, it would seem like an extension is my best bet. However, my 3D slicer won’t load the extension ca…

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## [Imported obj color is gray](https://discourse.slicer.org/t/imported-obj-color-is-gray/7788)

<div class="topic-metadata">

**Author:** [@Amine](https://discourse.slicer.org/u/Amine)\
**Replies:** 10\
**Last updated:** [July 30, 2019, 8:56pm UTC](https://discourse.slicer.org/t/imported-obj-color-is-gray/7788 "2019-07-30T20:56:47Z")

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Version : 4.11.0 windows 10 imported obj files are stripped of their color and all shown gray, im i doing something wrong or is there a way to do it via scripts? Thanks

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## [Semi automated segmentation](https://discourse.slicer.org/t/semi-automated-segmentation/7761)

<div class="topic-metadata">

**Author:** [@tenzin\_kunkyab](https://discourse.slicer.org/u/tenzin_kunkyab)\
**Replies:** 10\
**Last updated:** [July 30, 2019, 8:11pm UTC](https://discourse.slicer.org/t/semi-automated-segmentation/7761 "2019-07-30T20:11:06Z")

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Hi Developers, Thank you very much for continuing to improve 3d Slicer. It has been a great help in my project. I would like to ask about GrowCut Algorithm, in the newly built version, there isn’t seem to be grow cut a…

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## [Dicom only visible in zoom](https://discourse.slicer.org/t/dicom-only-visible-in-zoom/7812)

<div class="topic-metadata">

**Author:** [@Smithbones](https://discourse.slicer.org/u/Smithbones)\
**Replies:** 2\
**Last updated:** [July 30, 2019, 2:08pm UTC](https://discourse.slicer.org/t/dicom-only-visible-in-zoom/7812 "2019-07-30T14:08:14Z")

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Hello, I have been trying to view DICOM CT scans -I have imported the files but when I load them to view the files show on the left as being live but the actual views (R,Y,G) are just black with nothing visible. However…

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## [Resampling for Radiomics](https://discourse.slicer.org/t/resampling-for-radiomics/7712)

<div class="topic-metadata">

**Author:** [@J\_C](https://discourse.slicer.org/u/J_C)\
**Replies:** 9\
**Last updated:** [July 30, 2019, 2:07pm UTC](https://discourse.slicer.org/t/resampling-for-radiomics/7712 "2019-07-30T14:07:57Z")

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Hello there, I’ve been trying Radiomics module for a little bit. I’m trying to analize T2 weighted images, but unfortunately they are not equally spaced. So I was thinking, it would be best to resample the entire scan be…

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## [Elastix outputs incorrect transform even though registration is successful](https://discourse.slicer.org/t/elastix-outputs-incorrect-transform-even-though-registration-is-successful/7792)

<div class="topic-metadata">

**Author:** [@Prashant\_Pandey](https://discourse.slicer.org/u/Prashant_Pandey)\
**Replies:** 3\
**Last updated:** [July 29, 2019, 6:10pm UTC](https://discourse.slicer.org/t/elastix-outputs-incorrect-transform-even-though-registration-is-successful/7792 "2019-07-29T18:10:57Z")

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I’m on the stable Windows release: 4.10.2 I’m using the Slicer Elastix module to perform rigid registration. I know the registration is successful because the output volume computed by elastix/transformix is correctly a…

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