# Development

**URL:** https://discourse.slicer.org/c/dev/5.md?no_subcategories=false&page=110

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

**Page:** 111

---

## [Bug: Slicer nightly freezes on MacOS Mojave at start](https://discourse.slicer.org/t/bug-slicer-nightly-freezes-on-macos-mojave-at-start/6231)

<div class="topic-metadata">

**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 3\
**Last updated:** [March 21, 2019, 2:30pm UTC](https://discourse.slicer.org/t/bug-slicer-nightly-freezes-on-macos-mojave-at-start/6231 "2019-03-21T14:30:37Z")

</div>

Behaviour: Slicer freezes at start for about 1 minute (sometimes more), then it starts normally. The freeze is even before the splash screen. Once the splash screen is shown it starts normally. System: Slicer nightly 20…

---

## [Compile error rebuilding Slicer](https://discourse.slicer.org/t/compile-error-rebuilding-slicer/6194)

<div class="topic-metadata">

**Author:** [@Lorensen](https://discourse.slicer.org/u/Lorensen)\
**Replies:** 6\
**Last updated:** [March 21, 2019, 11:23am UTC](https://discourse.slicer.org/t/compile-error-rebuilding-slicer/6194 "2019-03-21T11:23:53Z")

</div>

Folks, I’m building Slicer HEAD in a fresh directory c++ (GCC) 8.2.0 cmake version 3.14.0 ubuntu 14.04 I get the following compile error: \[100%\] Relocate \_sysconfigdata.py and update pybuilddir.txt Segmentation fa…

---

## [Python console warnings for deprecated methods](https://discourse.slicer.org/t/python-console-warnings-for-deprecated-methods/6218)

<div class="topic-metadata">

**Author:** [@fedorov](https://discourse.slicer.org/u/fedorov)\
**Replies:** 2\
**Last updated:** [March 20, 2019, 7:13pm UTC](https://discourse.slicer.org/t/python-console-warnings-for-deprecated-methods/6218 "2019-03-20T19:13:51Z")

</div>

I was debugging a code that iterated over segmentation nodes as below sn = slicer.mrmlScene.GetFirstNodeByClass('vtkMRMLSegmentationNode') while sn: ... sn = slicer.mrmlScene.GetNextNodeByClass('vtkMRMLSegmentationN…

---

## [Create extension as existing module with additional functions](https://discourse.slicer.org/t/create-extension-as-existing-module-with-additional-functions/6211)

<div class="topic-metadata">

**Author:** [@n2018](https://discourse.slicer.org/u/n2018)\
**Replies:** 2\
**Last updated:** [March 19, 2019, 8:57pm UTC](https://discourse.slicer.org/t/create-extension-as-existing-module-with-additional-functions/6211 "2019-03-19T20:57:59Z")

</div>

Hello! I want to add some functions to an existing module by writing an extension on Python, is it possible to copy existing module interface and functionality and add my own ones?

---

## [Fractal dimension](https://discourse.slicer.org/t/fractal-dimension/5890)

<div class="topic-metadata">

**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 8\
**Last updated:** [March 18, 2019, 12:57pm UTC](https://discourse.slicer.org/t/fractal-dimension/5890 "2019-03-18T12:57:59Z")

</div>

Hi all, I’m writing to ask if a new extension can be interested for the community. In collaboration with some colleagues of mine, we wrote a python code for fractal dimension computation. We had this idea because we r…

---

## [MacOS Sierra (10.12.6) dynamic linker errors](https://discourse.slicer.org/t/macos-sierra-10-12-6-dynamic-linker-errors/2339)

<div class="topic-metadata">

**Author:** [@hherhold](https://discourse.slicer.org/u/hherhold)\
**Replies:** 5\
**Last updated:** [April 13, 2018, 6:00pm UTC](https://discourse.slicer.org/t/macos-sierra-10-12-6-dynamic-linker-errors/2339 "2018-04-13T18:00:33Z")

</div>

Hey guys, I’m running into some dynamic linker errors on startup with master built on 10.12.6: dlopen(/Users/hherhold/Development/slicer/build-qt5/Slicer-build/lib/Slicer-4.9/qt-loadable-modules/vtkSlicerCropVolumeModu…

---

## [Remove small artifacts from 3d model](https://discourse.slicer.org/t/remove-small-artifacts-from-3d-model/6170)

<div class="topic-metadata">

**Author:** [@Michael\_Ef](https://discourse.slicer.org/u/Michael_Ef)\
**Replies:** 1\
**Last updated:** [March 17, 2019, 12:40pm UTC](https://discourse.slicer.org/t/remove-small-artifacts-from-3d-model/6170 "2019-03-17T12:40:58Z")

</div>

Hello, I reconstructed a 3d model of prostate glands from histological slides by marching cubes algorithm. In my model I have a lot of small contours that i do not want to have in the model. Is there a way (e.g. a vtk f…

---

## [Windows extensions not being built](https://discourse.slicer.org/t/windows-extensions-not-being-built/6142)

<div class="topic-metadata">

**Author:** [@jamesobutler](https://discourse.slicer.org/u/jamesobutler)\
**Replies:** 3\
**Last updated:** [March 15, 2019, 3:43pm UTC](https://discourse.slicer.org/t/windows-extensions-not-being-built/6142 "2019-03-15T15:43:55Z")

</div>

I’ve noticed that Windows extensions for stable and preview weren’t built during the build process last night or the night before. http://slicer.cdash.org/index.php?project=Slicer4&date=2019-03-14 Also the preview Slic…

---

## [Importing PLY with Color](https://discourse.slicer.org/t/importing-ply-with-color/5500)

<div class="topic-metadata">

**Author:** [@Nicholas.jacobson](https://discourse.slicer.org/u/Nicholas.jacobson)\
**Replies:** 4\
**Last updated:** [March 13, 2019, 2:22pm UTC](https://discourse.slicer.org/t/importing-ply-with-color/5500 "2019-03-13T14:22:28Z")

</div>

Hi All, I am importing a PLY file with color from 4d flow. It imports well but is missing the color. This color is coming through in other software so I know there is information in the file. Any advice for activating c…

---

## [Preview.apidocs.slicer.org status](https://discourse.slicer.org/t/preview-apidocs-slicer-org-status/6108)

<div class="topic-metadata">

**Author:** [@fedorov](https://discourse.slicer.org/u/fedorov)\
**Replies:** 7\
**Last updated:** [March 11, 2019, 7:25pm UTC](https://discourse.slicer.org/t/preview-apidocs-slicer-org-status/6108 "2019-03-11T19:25:48Z")

</div>

Is preview.apidocs.slicer.org something that is supposed to be usable or “previewable”? Currently, the link shows the below, which I am not sure corresponds to the description of that resource: According to the readm…

---

## [Can I change the scale of Crosshair in 3d window](https://discourse.slicer.org/t/can-i-change-the-scale-of-crosshair-in-3d-window/6080)

<div class="topic-metadata">

**Author:** [@timeanddoctor](https://discourse.slicer.org/u/timeanddoctor)\
**Replies:** 1\
**Last updated:** [March 11, 2019, 5:03am UTC](https://discourse.slicer.org/t/can-i-change-the-scale-of-crosshair-in-3d-window/6080 "2019-03-11T05:03:14Z")

</div>

The crosshair is often covered by a largle model. So, can I change the scale in 3d windows not the thick

---

## [How to replicate the behavior of "remove all markups from the active list" from the module "markups"](https://discourse.slicer.org/t/how-to-replicate-the-behavior-of-remove-all-markups-from-the-active-list-from-the-module-markups/6075)

<div class="topic-metadata">

**Author:** [@ZiyunLiang](https://discourse.slicer.org/u/ZiyunLiang)\
**Replies:** 2\
**Last updated:** [March 9, 2019, 2:02am UTC](https://discourse.slicer.org/t/how-to-replicate-the-behavior-of-remove-all-markups-from-the-active-list-from-the-module-markups/6075 "2019-03-09T02:02:48Z")

</div>

Hi, everyone! I’m writing a scripted module and I want to replicate the behavior of “remove all markups from the active list” from the module “markups” to my module. I have already replicated the behaviors like adding f…

---

## [Extensions: How to create package file](https://discourse.slicer.org/t/extensions-how-to-create-package-file/6079)

<div class="topic-metadata">

**Author:** [@triple\_axel](https://discourse.slicer.org/u/triple_axel)\
**Replies:** 1\
**Last updated:** [March 8, 2019, 11:00pm UTC](https://discourse.slicer.org/t/extensions-how-to-create-package-file/6079 "2019-03-08T23:00:18Z")

</div>

Hi, I am trying to test out my extension by manually downloading it via the extension manager. I am currently following this tutorial: https://www.slicer.org/wiki/Documentation/Nightly/Developers/Tutorials/BuildTestPac…

---

## [Drawing Polygons on Labelmap Masks](https://discourse.slicer.org/t/drawing-polygons-on-labelmap-masks/5994)

<div class="topic-metadata">

**Author:** [@gleman](https://discourse.slicer.org/u/gleman)\
**Replies:** 2\
**Last updated:** [March 7, 2019, 3:52am UTC](https://discourse.slicer.org/t/drawing-polygons-on-labelmap-masks/5994 "2019-03-07T03:52:37Z")

</div>

I’ve got a function that produces a list of vtkPolygons (that I put together into a vtkPolyData) that I’d like to “draw” on a labelmap mask. It looks like EditorLib.LabelEffect.slicer.SegmentEditorDrawEffect.scriptedEf…

---

## [A few issues with the new Markups](https://discourse.slicer.org/t/a-few-issues-with-the-new-markups/6051)

<div class="topic-metadata">

**Author:** [@smrolfe](https://discourse.slicer.org/u/smrolfe)\
**Replies:** 3\
**Last updated:** [March 7, 2019, 2:29am UTC](https://discourse.slicer.org/t/a-few-issues-with-the-new-markups/6051 "2019-03-07T02:29:48Z")

</div>

I’ve been using the new Markups module and have run into a few issues. I’m testing on the most recent nightly build. Toggling the visibility of landmarks causes them to be permanently invisible. The 2D projection optio…

---

## [Segment Visibility Code Not Functioning for me](https://discourse.slicer.org/t/segment-visibility-code-not-functioning-for-me/5974)

<div class="topic-metadata">

**Author:** [@coolsocks](https://discourse.slicer.org/u/coolsocks)\
**Replies:** 2\
**Last updated:** [March 1, 2019, 2:35pm UTC](https://discourse.slicer.org/t/segment-visibility-code-not-functioning-for-me/5974 "2019-03-01T14:35:16Z")

</div>

Hi, I have an issue where indeed I can set the entire segmentation to not be visible via vtkMRMLSegmentationNode by doing: display = segmentation.GetDisplayNode() display.SetVisibility(0) However, whenever I attempt …

---

## [\[Sequences\] Drive 3D camera via sequence of transforms](https://discourse.slicer.org/t/sequences-drive-3d-camera-via-sequence-of-transforms/5933)

<div class="topic-metadata">

**Author:** [@adamrankin](https://discourse.slicer.org/u/adamrankin)\
**Replies:** 1\
**Last updated:** [February 26, 2019, 4:56pm UTC](https://discourse.slicer.org/t/sequences-drive-3d-camera-via-sequence-of-transforms/5933 "2019-02-26T16:56:58Z")

</div>

Is it currently possible to drive the 3D view camera by a sequence of transforms? I know you can record the camera and play it back, but I am unable to find a way to convert transforms to camera.

---

## [Video compression in Slicer core](https://discourse.slicer.org/t/video-compression-in-slicer-core/1846)

<div class="topic-metadata">

**Author:** [@Sunderlandkyl](https://discourse.slicer.org/u/Sunderlandkyl)\
**Replies:** 27\
**Last updated:** [January 24, 2018, 2:57am UTC](https://discourse.slicer.org/t/video-compression-in-slicer-core/1846 "2018-01-24T02:57:25Z")

</div>

Hi All, With the growing desire to have video compression accessible within Slicer, it would be useful to have a discussion regarding how to go about integrating it into the Slicer core. Adding a video codec interfac…

---

## [Points and surface interaction between segment node and model node](https://discourse.slicer.org/t/points-and-surface-interaction-between-segment-node-and-model-node/5921)

<div class="topic-metadata">

**Author:** [@SebastianE93](https://discourse.slicer.org/u/SebastianE93)\
**Replies:** 3\
**Last updated:** [February 28, 2019, 12:47am UTC](https://discourse.slicer.org/t/points-and-surface-interaction-between-segment-node-and-model-node/5921 "2019-02-28T00:47:10Z")

</div>

Operating system: Windows 10 Slicer version: 4.11.0 Expected behavior: Actual behavior: Sorry for my question, i’m a newby I’m trying to determine how many points of the surface of a vtkMRMLSegmentationNode is inter…

---

## [Problem using RegisterOutgoingMRMLNode in Slicer 4.10](https://discourse.slicer.org/t/problem-using-registeroutgoingmrmlnode-in-slicer-4-10/5942)

<div class="topic-metadata">

**Author:** [@mcfly3001](https://discourse.slicer.org/u/mcfly3001)\
**Replies:** 9\
**Last updated:** [February 27, 2019, 3:44pm UTC](https://discourse.slicer.org/t/problem-using-registeroutgoingmrmlnode-in-slicer-4-10/5942 "2019-02-27T15:44:50Z")

</div>

Hi Community, I would again need some help with an issue I have with Slicer 4.10. I want to register an outgoing node for to an OpenIGTLink Connection (Server). The node is of type “vtkMRMLTextNode”. As soon as I call R…

---

## [\[Sequences\] Possible to save multiple sequences to one file?](https://discourse.slicer.org/t/sequences-possible-to-save-multiple-sequences-to-one-file/5932)

<div class="topic-metadata">

**Author:** [@adamrankin](https://discourse.slicer.org/u/adamrankin)\
**Replies:** 2\
**Last updated:** [February 26, 2019, 5:09pm UTC](https://discourse.slicer.org/t/sequences-possible-to-save-multiple-sequences-to-one-file/5932 "2019-02-26T17:09:29Z")

</div>

Is it possible to save multiple sequences to a single file? @lassoan @cpinter

---

## [Segment Editor source code](https://discourse.slicer.org/t/segment-editor-source-code/5845)

<div class="topic-metadata">

**Author:** [@dp1991](https://discourse.slicer.org/u/dp1991)\
**Replies:** 10\
**Last updated:** [February 26, 2019, 5:23am UTC](https://discourse.slicer.org/t/segment-editor-source-code/5845 "2019-02-26T05:23:59Z")

</div>

Hello friends, I have a question How can I use " Segment Editor " ( 3d slicer module), in VS2015 C++ ?? I need the source code of this module Can anyone help me ??

---

## [How to load with CTKWidgets and qMRMLWidgets](https://discourse.slicer.org/t/how-to-load-with-ctkwidgets-and-qmrmlwidgets/5917)

<div class="topic-metadata">

**Author:** [@Mr.wyr](https://discourse.slicer.org/u/Mr.wyr)\
**Replies:** 2\
**Last updated:** [February 25, 2019, 2:56pm UTC](https://discourse.slicer.org/t/how-to-load-with-ctkwidgets-and-qmrmlwidgets/5917 "2019-02-25T14:56:22Z")

</div>

I read https://www.slicer.org/wiki/Documentation/Nightly/Developers/Tutorials/QtDesigner,and set the environment variable QT\_PLUGIN\_PATH to the directory Slicer-build/bin,but widgets do not appear in Qt Designer

---

## [Slicer Transform vs elastix Transform](https://discourse.slicer.org/t/slicer-transform-vs-elastix-transform/2507)

<div class="topic-metadata">

**Author:** [@brhoom](https://discourse.slicer.org/u/brhoom)\
**Replies:** 5\
**Last updated:** [February 25, 2019, 1:49pm UTC](https://discourse.slicer.org/t/slicer-transform-vs-elastix-transform/2507 "2019-02-25T13:49:15Z")

</div>

It is not clear the relation between them, here is what I did: Transform manually an image imgf using Slicer Transforms module, only one translation t\_x in LR and one rotation θ\_x in LR t\_x=10 mm , θ\_x= 45 degrees the…

---

## [Bad defines in archive\_pack\_dev.c](https://discourse.slicer.org/t/bad-defines-in-archive-pack-dev-c/5902)

<div class="topic-metadata">

**Author:** [@wvxvw](https://discourse.slicer.org/u/wvxvw)\
**Replies:** 1\
**Last updated:** [February 25, 2019, 12:39pm UTC](https://discourse.slicer.org/t/bad-defines-in-archive-pack-dev-c/5902 "2019-02-25T12:39:14Z")

</div>

Operating system: Xubuntu 18 LTS Slicer version: 4.10.1 Expected behavior: Slicer compiles Actual behavior: Slicer doesn’t compile /home/wvxvw/src/Slicer/Slicer-SuperBuild-Debug/LibArchive/libarchive/archive\_pack\_dev…

---

## [How can a new python library be added such as ast or astor in the python interpreter?](https://discourse.slicer.org/t/how-can-a-new-python-library-be-added-such-as-ast-or-astor-in-the-python-interpreter/5871)

<div class="topic-metadata">

**Author:** [@carlos-luque](https://discourse.slicer.org/u/carlos-luque)\
**Replies:** 3\
**Last updated:** [February 22, 2019, 3:14pm UTC](https://discourse.slicer.org/t/how-can-a-new-python-library-be-added-such-as-ast-or-astor-in-the-python-interpreter/5871 "2019-02-22T15:14:44Z")

</div>

Hello everyone I´m working the supporting the i18n for script modules, which was started in the 30th project week. In this process, the libraries ast and astor are utilited. The library ast is included in 3d Slicer, but…

---

## [Extension dependency not found](https://discourse.slicer.org/t/extension-dependency-not-found/5872)

<div class="topic-metadata">

**Author:** [@adamrankin](https://discourse.slicer.org/u/adamrankin)\
**Replies:** 4\
**Last updated:** [February 21, 2019, 7:18pm UTC](https://discourse.slicer.org/t/extension-dependency-not-found/5872 "2019-02-21T19:18:00Z")

</div>

Hello all, Looking into why our extension didn’t build: http://slicer.cdash.org/viewConfigure.php?buildid=1518975 Is there something obvious I’m missing? I added the dependency to SlicerVirtualReality in EXTENSION\_DEP…

---

## [Wiki outdated and some pages not working](https://discourse.slicer.org/t/wiki-outdated-and-some-pages-not-working/5841)

<div class="topic-metadata">

**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 7\
**Last updated:** [February 21, 2019, 4:44am UTC](https://discourse.slicer.org/t/wiki-outdated-and-some-pages-not-working/5841 "2019-02-21T04:44:11Z")

</div>

the developers starting guide is completely outdated. the bug tracker in MantisBT is not accepting new users. the Bootcamp is based on google+ which will close on April 2, 2019 So I think some actions are need to pres…

---

## [Get image data from reformatted CT volume slice](https://discourse.slicer.org/t/get-image-data-from-reformatted-ct-volume-slice/5772)

<div class="topic-metadata">

**Author:** [@DAVID\_GARCIA\_MATO](https://discourse.slicer.org/u/DAVID_GARCIA_MATO)\
**Replies:** 6\
**Last updated:** [February 21, 2019, 1:40am UTC](https://discourse.slicer.org/t/get-image-data-from-reformatted-ct-volume-slice/5772 "2019-02-21T01:40:46Z")

</div>

Hello, I need to get image data (meaning pixel/voxel values) from a reformatted CT volume slice. I have developed a simple scripted module to load a CT volume and used the “Reformat” module in Slicer to reformat a CT s…

---

## [Usage of CLI modules outside Slicer](https://discourse.slicer.org/t/usage-of-cli-modules-outside-slicer/5851)

<div class="topic-metadata">

**Author:** [@cpinter](https://discourse.slicer.org/u/cpinter)\
**Replies:** 2\
**Last updated:** [February 20, 2019, 8:21pm UTC](https://discourse.slicer.org/t/usage-of-cli-modules-outside-slicer/5851 "2019-02-20T20:21:26Z")

</div>

Hi there! I’d would like to ask about some details of CLI modules that I wasn’t able to find online for my PhD thesis. Are CLIs (/SEM/CLP) actually used outside Slicer? I found evidence for that in MITK (the links on t…

[Previous page](https://discourse.slicer.org/c/dev/5.md?no_subcategories=false&page=109)

[Next page](https://discourse.slicer.org/c/dev/5.md?no_subcategories=false&page=111)