# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=211

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

**Page:** 212

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## [Multivolume to Scalar Volume](https://discourse.slicer.org/t/multivolume-to-scalar-volume/24644)

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**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 5\
**Last updated:** [August 5, 2022, 12:17pm UTC](https://discourse.slicer.org/t/multivolume-to-scalar-volume/24644 "2022-08-05T12:17:39Z")

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Hi all, Slicer reads a CBCT as a multi-volume, even if it contains just a single scan. How can I convert it into a scalar volume? Thanks a lot. Paolo

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## [How does Slicer distinguish different series?](https://discourse.slicer.org/t/how-does-slicer-distinguish-different-series/24338)

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**Author:** [@kaizhao](https://discourse.slicer.org/u/kaizhao)\
**Replies:** 2\
**Last updated:** [August 5, 2022, 1:53am UTC](https://discourse.slicer.org/t/how-does-slicer-distinguish-different-series/24338 "2022-08-05T01:53:53Z")

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I’m developing an automatic algorithm to generate 3 different parametric maps. Specifically, I generate 3 different maps named ktrans, t0 and kep maps. The generated maps are written into dicom files with pydicom packag…

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## [How can I "dicom to .ima"](https://discourse.slicer.org/t/how-can-i-dicom-to-ima/24620)

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**Author:** [@hozermd](https://discourse.slicer.org/u/hozermd)\
**Replies:** 4\
**Last updated:** [August 4, 2022, 8:31pm UTC](https://discourse.slicer.org/t/how-can-i-dicom-to-ima/24620 "2022-08-04T20:31:23Z")

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Hi I work in interventional radiology. The 3D unit of our existing angiography device (Artis Zee) can fusion tomography images. However, cross-sectional images must be \*.IMA. Since our tomography device is General Elect…

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## [ParrallelProcessing cannot work well on M1 Mac](https://discourse.slicer.org/t/parrallelprocessing-cannot-work-well-on-m1-mac/24477)

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**Author:** [@wrc](https://discourse.slicer.org/u/wrc)\
**Replies:** 6\
**Last updated:** [August 4, 2022, 2:52pm UTC](https://discourse.slicer.org/t/parrallelprocessing-cannot-work-well-on-m1-mac/24477 "2022-08-04T14:52:37Z")

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Hi, I am developing an extension based on ParrallelProcessing. This extension will run a python script in another CPU core. If the process ends, the script will be run again. It works well in most cases but fails sometim…

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## [SlicerVirtualReality issues](https://discourse.slicer.org/t/slicervirtualreality-issues/23028)

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**Author:** [@jruben4](https://discourse.slicer.org/u/jruben4)\
**Replies:** 30\
**Last updated:** [August 4, 2022, 2:24pm UTC](https://discourse.slicer.org/t/slicervirtualreality-issues/23028 "2022-08-04T14:24:43Z")

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Trying to view a volume rendering in VR using SlicerVirtualReality plugin. Using an occulus quest 2 using occulus link cable to a laptop. I load the DICOM data set, and set up the volume rendering so I see it on the l…

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## [How to adjust the slice thickness based on the axial position](https://discourse.slicer.org/t/how-to-adjust-the-slice-thickness-based-on-the-axial-position/24629)

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**Author:** [@Chenglin\_Zhu](https://discourse.slicer.org/u/Chenglin_Zhu)\
**Replies:** 1\
**Last updated:** [August 4, 2022, 1:42pm UTC](https://discourse.slicer.org/t/how-to-adjust-the-slice-thickness-based-on-the-axial-position/24629 "2022-08-04T13:42:16Z")

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Hi all, The goal is to calculate kidney volume accurately based on the MRI. Sometimes, the abdomen MRI and pelvis MRI are composed to capture the complete kidneys. However, there could be an overlapping region between t…

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## [Calling transform function in python module](https://discourse.slicer.org/t/calling-transform-function-in-python-module/24638)

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**Author:** [@AMK](https://discourse.slicer.org/u/AMK)\
**Replies:** 0\
**Last updated:** [August 4, 2022, 11:48am UTC](https://discourse.slicer.org/t/calling-transform-function-in-python-module/24638 "2022-08-04T11:48:15Z")

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Hi, I am trying to implement the functionality in my python module whereby I can move the ‘World to ACPC’ transform from transformable to Transformed and select it. Currently, i am able to do so in the Transform module …

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## [Semi-automatic segmentation tools-PET image-Head and Neck cancer](https://discourse.slicer.org/t/semi-automatic-segmentation-tools-pet-image-head-and-neck-cancer/21074)

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**Author:** [@MPhilip](https://discourse.slicer.org/u/MPhilip)\
**Replies:** 18\
**Last updated:** [August 4, 2022, 11:32am UTC](https://discourse.slicer.org/t/semi-automatic-segmentation-tools-pet-image-head-and-neck-cancer/21074 "2022-08-04T11:32:34Z")

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Operating system: Windows 10 enterprise Slicer version:4.13.0-2021-12-02 Hi I would like to know which are the semi-automatic segmentation tools available in 3D Slicer which could be used for segmenting tumour in head…

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## [Inconsistent handling of multiprocessing by slicer](https://discourse.slicer.org/t/inconsistent-handling-of-multiprocessing-by-slicer/24623)

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**Author:** [@dvbower](https://discourse.slicer.org/u/dvbower)\
**Replies:** 2\
**Last updated:** [August 4, 2022, 8:02am UTC](https://discourse.slicer.org/t/inconsistent-handling-of-multiprocessing-by-slicer/24623 "2022-08-04T08:02:38Z")

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On a Windows 10 enterprise computer the following multiprocessing code block evaluates differently for two execution commands. Executing the script directly with PythonSlicer.exe gives the expected result, i.e., output …

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## [Can we navigate through markups control points with keyboard?](https://discourse.slicer.org/t/can-we-navigate-through-markups-control-points-with-keyboard/20307)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 1\
**Last updated:** [August 4, 2022, 6:42am UTC](https://discourse.slicer.org/t/can-we-navigate-through-markups-control-points-with-keyboard/20307 "2022-08-04T06:42:07Z")

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I could not find keyboard shortcuts to move through next and previous markups control points. The right click menu items allow this but is more demanding than with keyboard. Is this possible with the keyboard ? All rando…

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## [Export the displacement vector to matlab](https://discourse.slicer.org/t/export-the-displacement-vector-to-matlab/22543)

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**Author:** [@dingyangyuan](https://discourse.slicer.org/u/dingyangyuan)\
**Replies:** 8\
**Last updated:** [August 4, 2022, 6:22am UTC](https://discourse.slicer.org/t/export-the-displacement-vector-to-matlab/22543 "2022-08-04T06:22:39Z")

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I want to export the output vector field to the MATLAB. I used the B spline registration in Plastimatch module, and saved the Output vector field DVF in nrrd. Then I read the DVF.nrrd using nrrdread.m. I compared the …

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## [Help in registration](https://discourse.slicer.org/t/help-in-registration/24094)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 1\
**Last updated:** [August 4, 2022, 6:17am UTC](https://discourse.slicer.org/t/help-in-registration/24094 "2022-08-04T06:17:34Z")

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I’m trying to register two head and neck ct volumes with BRAINS , yet I’m not having a good result, any suggestions?

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## [Issues running Slicer on macbook m1 max](https://discourse.slicer.org/t/issues-running-slicer-on-macbook-m1-max/23974)

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**Author:** [@sannpeterson](https://discourse.slicer.org/u/sannpeterson)\
**Replies:** 6\
**Last updated:** [August 4, 2022, 5:45am UTC](https://discourse.slicer.org/t/issues-running-slicer-on-macbook-m1-max/23974 "2022-08-04T05:45:56Z")

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I’m trying to use Slicer on the macbook m1 max but I’m having a lot of performance issues. I’m mostly trying to segment brain vessels but the program crashes constantly while I’m in segment editor. I haven’t been able to…

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## [DVF as numerical data](https://discourse.slicer.org/t/dvf-as-numerical-data/24633)

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**Author:** [@junya](https://discourse.slicer.org/u/junya)\
**Replies:** 0\
**Last updated:** [August 4, 2022, 5:23am UTC](https://discourse.slicer.org/t/dvf-as-numerical-data/24633 "2022-08-04T05:23:09Z")

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Hello, We have 4DCT data in DICOM format. I would like to segment the liver between different respiratory phases and DIR those two to get the DVF data as numerical values. The segmentation has been completed, but I want…

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## [Touchscreen compatibility questions](https://discourse.slicer.org/t/touchscreen-compatibility-questions/24624)

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**Author:** [@sannpeterson](https://discourse.slicer.org/u/sannpeterson)\
**Replies:** 1\
**Last updated:** [August 3, 2022, 9:40pm UTC](https://discourse.slicer.org/t/touchscreen-compatibility-questions/24624 "2022-08-03T21:40:58Z")

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I’m using the Surface Studio to perform segmentations and was wondering if there’s a way to set hand gestures to selection only (no editing) and the pen would be set to the current editing tool. This way going back and f…

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## [Add or maintain window level preset](https://discourse.slicer.org/t/add-or-maintain-window-level-preset/24606)

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**Author:** [@rhodesdante](https://discourse.slicer.org/u/rhodesdante)\
**Replies:** 2\
**Last updated:** [August 3, 2022, 6:33pm UTC](https://discourse.slicer.org/t/add-or-maintain-window-level-preset/24606 "2022-08-03T18:33:22Z")

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I am trying to create a window/level preset so it pops down on right-click of the slice panes, or make a previous manual preset “sticky”, as described here. I would prefer to do the sticky option, because the person for …

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## [Annotating DICOM video for swallowing studies](https://discourse.slicer.org/t/annotating-dicom-video-for-swallowing-studies/24481)

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**Author:** [@pmpradhan](https://discourse.slicer.org/u/pmpradhan)\
**Replies:** 1\
**Last updated:** [August 3, 2022, 4:45pm UTC](https://discourse.slicer.org/t/annotating-dicom-video-for-swallowing-studies/24481 "2022-08-03T16:45:47Z")

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Operating system: Windows Slicer version:4.11.20210226 Expected behavior: Annotate one frame and have it across all other frames for a single study. Actual behavior: Can annotate one frame and save it but cannot have …

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## [Slicerfreesurfer in slicer5.0 not present](https://discourse.slicer.org/t/slicerfreesurfer-in-slicer5-0-not-present/24621)

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**Author:** [@mosenco](https://discourse.slicer.org/u/mosenco)\
**Replies:** 1\
**Last updated:** [August 3, 2022, 3:46pm UTC](https://discourse.slicer.org/t/slicerfreesurfer-in-slicer5-0-not-present/24621 "2022-08-03T15:46:09Z")

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i have some file with extension .pial or .white made in freesurfer that works fine in slicer4.6. But when i try to load the data with add file i got an error Could not find a suitable storage node for file. I tried to …

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## [Can slicer rotate the 2D view like video showed？](https://discourse.slicer.org/t/can-slicer-rotate-the-2d-view-like-video-showed/24614)

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**Author:** [@zhang\_ming](https://discourse.slicer.org/u/zhang_ming)\
**Replies:** 1\
**Last updated:** [August 3, 2022, 2:36pm UTC](https://discourse.slicer.org/t/can-slicer-rotate-the-2d-view-like-video-showed/24614 "2022-08-03T14:36:11Z")

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Oblique mode in 2d dicom pics , in dental this function is important. can slicer support this mode?

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## [Algorithm used in grow from seeds](https://discourse.slicer.org/t/algorithm-used-in-grow-from-seeds/22811)

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**Author:** [@MPhilip](https://discourse.slicer.org/u/MPhilip)\
**Replies:** 4\
**Last updated:** [August 3, 2022, 10:58am UTC](https://discourse.slicer.org/t/algorithm-used-in-grow-from-seeds/22811 "2022-08-03T10:58:17Z")

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Hi Could you please guide me to relevant documentation of grow from seeds effect implemented on 3D slicer detailing the algorithm used? I have found this paper in the documentation, \* The method uses an improved versio…

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## [Usage of slicer.app.processEvents() for dicomDatabase operations](https://discourse.slicer.org/t/usage-of-slicer-app-processevents-for-dicomdatabase-operations/24583)

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**Author:** [@dvbower](https://discourse.slicer.org/u/dvbower)\
**Replies:** 2\
**Last updated:** [August 3, 2022, 10:00am UTC](https://discourse.slicer.org/t/usage-of-slicer-app-processevents-for-dicomdatabase-operations/24583 "2022-08-03T10:00:13Z")

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I have written a simple method to copy and rename DICOM files from my slicer database. A code snippet is provided below. I run this code within the slicer python interpreter. It works, but I do not know if every slice…

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## [Load 3D ultrasound from Samsung .mvl or DICOM files](https://discourse.slicer.org/t/load-3d-ultrasound-from-samsung-mvl-or-dicom-files/16784)

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**Author:** [@B1z4rr3](https://discourse.slicer.org/u/B1z4rr3)\
**Replies:** 9\
**Last updated:** [August 3, 2022, 6:54am UTC](https://discourse.slicer.org/t/load-3d-ultrasound-from-samsung-mvl-or-dicom-files/16784 "2022-08-03T06:54:52Z")

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hello I am not able to load the dicom files, the three windows all appear in axial … can you help me?

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## [Z Stretches out when adding scalar volumes](https://discourse.slicer.org/t/z-stretches-out-when-adding-scalar-volumes/24605)

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**Author:** [@Justin\_Chin](https://discourse.slicer.org/u/Justin_Chin)\
**Replies:** 1\
**Last updated:** [August 3, 2022, 6:32am UTC](https://discourse.slicer.org/t/z-stretches-out-when-adding-scalar-volumes/24605 "2022-08-03T06:32:59Z")

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I am currently trying to stitch together multiple microCT volumes and I have transformed the volumes manually to align them alongside creating a reference volume that spans the whole thing. While my sliceview shows the w…

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## [Change default colour palette](https://discourse.slicer.org/t/change-default-colour-palette/8385)

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**Author:** [@Jonathan\_Lesage](https://discourse.slicer.org/u/Jonathan_Lesage)\
**Replies:** 3\
**Last updated:** [August 3, 2022, 6:30am UTC](https://discourse.slicer.org/t/change-default-colour-palette/8385 "2022-08-03T06:30:07Z")

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Hi All, I am hoping to change the default colourmap that is applied to all loaded volumes from Grey to a custom map I’ve added to the list by putting a file in the colors directory. Is this something simple to do? Alter…

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## [Commandline SPHARM-PDM using parameter options](https://discourse.slicer.org/t/commandline-spharm-pdm-using-parameter-options/24609)

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**Author:** [@Khalid\_Saifullah](https://discourse.slicer.org/u/Khalid_Saifullah)\
**Replies:** 0\
**Last updated:** [August 2, 2022, 10:11pm UTC](https://discourse.slicer.org/t/commandline-spharm-pdm-using-parameter-options/24609 "2022-08-02T22:11:03Z")

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Hi! I am trying to run the 3 steps of SPHARM-PDM separately using commandline options. I can see that SlicerSALT has a commandline option but this generates all the 3 steps together i.e. just like how you could run them…

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## [How to use Python to achieve the thresholding effect of the ‘Volumes’ module? (synchronized with the volume rendering)](https://discourse.slicer.org/t/how-to-use-python-to-achieve-the-thresholding-effect-of-the-volumes-module-synchronized-with-the-volume-rendering/20891)

<div class="topic-metadata">

**Author:** [@CharlesChen](https://discourse.slicer.org/u/CharlesChen)\
**Replies:** 42\
**Last updated:** [August 2, 2022, 9:35pm UTC](https://discourse.slicer.org/t/how-to-use-python-to-achieve-the-thresholding-effect-of-the-volumes-module-synchronized-with-the-volume-rendering/20891 "2022-08-02T21:35:34Z")

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Hi there, I’m new to 3D Slicer. Currently, I am trying to develop a python scripted module in 3D Slicer. One of the features is to control the threshold of the volume rendering image through a slider. In other words,…

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## [Angle between planes](https://discourse.slicer.org/t/angle-between-planes/24559)

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**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 2\
**Last updated:** [August 2, 2022, 6:15pm UTC](https://discourse.slicer.org/t/angle-between-planes/24559 "2022-08-02T18:15:33Z")

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Hi all, I would like to quantify an angle between 2 planes. Q3DC allows drawing lines, not planes. Do you know how to get this parameter? Thanks a lot, Paolo

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## [Model to Model distance computation is "completed with error"](https://discourse.slicer.org/t/model-to-model-distance-computation-is-completed-with-error/23901)

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**Author:** [@Moh\_d\_Al-Watary](https://discourse.slicer.org/u/Moh_d_Al-Watary)\
**Replies:** 4\
**Last updated:** [August 2, 2022, 3:47pm UTC](https://discourse.slicer.org/t/model-to-model-distance-computation-is-completed-with-error/23901 "2022-08-02T15:47:37Z")

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Dears in 3D Slicer support, I am experiencing and old problem: when using Model to Model distance it is suddenly ending with this message: completed with error. the version I am using is 4.11…2021.0226 ( I am using thi…

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## [Editing segments doesn't respond](https://discourse.slicer.org/t/editing-segments-doesnt-respond/24603)

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**Author:** [@sserna](https://discourse.slicer.org/u/sserna)\
**Replies:** 0\
**Last updated:** [August 2, 2022, 10:47am UTC](https://discourse.slicer.org/t/editing-segments-doesnt-respond/24603 "2022-08-02T10:47:40Z")

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After merging several segments, it stop answering, specially with logical operator, the apply bottom seems to not work, I can’t apply threshold or add/subtract any segments or use the island tool.

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## [How to save in .mat format](https://discourse.slicer.org/t/how-to-save-in-mat-format/24593)

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**Author:** [@akmal871026](https://discourse.slicer.org/u/akmal871026)\
**Replies:** 2\
**Last updated:** [August 2, 2022, 10:19am UTC](https://discourse.slicer.org/t/how-to-save-in-mat-format/24593 "2022-08-02T10:19:45Z")

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Dear all, Does anyone know how to save labeling images in slicer? Let’s say labeled a tumor in the liver. then I want to save it in a logical/categorical data set (.mat) because currently just have .nrrd format, then …

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