# \#github

**URL:** https://discourse.itk.org/tag/github/6.md

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

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## [Dice Coefficient Calculation in Python](https://discourse.itk.org/t/dice-coefficient-calculation-in-python/7628)

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**Author:** [@blue\_sky](https://discourse.itk.org/u/blue_sky)\
**Replies:** 2\
**Last updated:** [September 11, 2025, 9:01am UTC](https://discourse.itk.org/t/dice-coefficient-calculation-in-python/7628 "2025-09-11T09:01:10Z")

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Hello everyone, I’m trying to compute the Dice coefficient using a Python script. To implement this, I have used ideas and code from the following links: “SimpleITK-Notebooks/Python/34\_Segmentation\_Evaluation.ipynb at…

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## [Unifying CT Images Geometry and Cropping to Common ROI](https://discourse.itk.org/t/unifying-ct-images-geometry-and-cropping-to-common-roi/7614)

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**Author:** [@blue\_sky](https://discourse.itk.org/u/blue_sky)\
**Replies:** 3\
**Last updated:** [August 25, 2025, 5:11pm UTC](https://discourse.itk.org/t/unifying-ct-images-geometry-and-cropping-to-common-roi/7614 "2025-08-25T17:11:31Z")

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Hi everyone, I am currently working on a medical image processing task that involves the registration of five CT image series for a single patient. My dataset consists of: One CT scan acquired during an External Radiot…

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## [ITK Git repository primary branch name transition from master to main](https://discourse.itk.org/t/itk-git-repository-primary-branch-name-transition-from-master-to-main/7569)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 5\
**Last updated:** [July 4, 2025, 9:27am UTC](https://discourse.itk.org/t/itk-git-repository-primary-branch-name-transition-from-master-to-main/7569 "2025-07-04T09:27:06Z")

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Hi folks, ITK’s default, primary branch name has been renamed from master to main. New GitHub clones will default to this branch. A few notes on changes that might be required. GitHub Forks When you visit your fork o…

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## [\[Question\] Python not found during compilation](https://discourse.itk.org/t/question-python-not-found-during-compilation/6580)

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**Author:** [@Suzaku](https://discourse.itk.org/u/Suzaku)\
**Replies:** 1\
**Last updated:** [April 17, 2024, 1:03pm UTC](https://discourse.itk.org/t/question-python-not-found-during-compilation/6580 "2024-04-17T13:03:15Z")

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Hi, I’m trying to compile SimpleITK with SimpleElastix in a ubuntu 20.04.6 LTS system. I’ve used the following command as suggested in the documentation: git clone GitHub - SimpleITK/SimpleITK: SimpleITK: a layer built o…

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## [Extending ITK for C++ and Python: Build and Test ITK External Modules in a GitHub Action](https://discourse.itk.org/t/extending-itk-for-c-and-python-build-and-test-itk-external-modules-in-a-github-action/5781)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [March 3, 2023, 6:02pm UTC](https://discourse.itk.org/t/extending-itk-for-c-and-python-build-and-test-itk-external-modules-in-a-github-action/5781 "2023-03-03T18:02:57Z")

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By: Tom Birdsong, Matt McCormick , Lucas Gandel, Simon Rit , Jean-Christophe Fillion-Robin, Stephen Aylward Medical imaging is an ever-changing domain, with technological advances introducing exciting new data and proce…

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## [Welcome and guide first-time contributors with a GitHub Action](https://discourse.itk.org/t/welcome-and-guide-first-time-contributors-with-a-github-action/5625)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [January 12, 2023, 4:37pm UTC](https://discourse.itk.org/t/welcome-and-guide-first-time-contributors-with-a-github-action/5625 "2023-01-12T16:37:41Z")

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By: Matt McCormick , Mary Elise Dedicke , Jon Haitz Legarreta Gorroño , Stephen Aylward , Will Schroeder Back in the day, before open source won the Closed vs. Open Wars (especially in scientific computing), RTFM. w…

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## [GetDRRSiddonJacobsRayTracing](https://discourse.itk.org/t/getdrrsiddonjacobsraytracing/5512)

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**Author:** [@YuanYang\_Deng](https://discourse.itk.org/u/YuanYang_Deng)\
**Replies:** 3\
**Last updated:** [November 22, 2022, 12:23am UTC](https://discourse.itk.org/t/getdrrsiddonjacobsraytracing/5512 "2022-11-22T00:23:34Z")

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I want to convert 3D CT images into X-ray images using DRR technology. But I don’t know how to use and run this algorithm. Did anyone run it successfully? Can you talk about how you work? https://github.com/InsightSoftw…

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## [itk.org/InsightSoftwareConsortium GitHub Org verified](https://discourse.itk.org/t/itk-org-insightsoftwareconsortium-github-org-verified/4740)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [January 20, 2022, 2:57pm UTC](https://discourse.itk.org/t/itk-org-insightsoftwareconsortium-github-org-verified/4740 "2022-01-20T14:57:48Z")

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Thanks to help from @jcfr @brad.king our itk.org domain is now verified on the InsightSoftwareConsortium GitHub Organization! :tada:

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## [Issue installing ITKPythonPackage with pip](https://discourse.itk.org/t/issue-installing-itkpythonpackage-with-pip/4530)

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**Author:** [@ClaraJ](https://discourse.itk.org/u/ClaraJ)\
**Replies:** 1\
**Last updated:** [October 28, 2021, 1:00pm UTC](https://discourse.itk.org/t/issue-installing-itkpythonpackage-with-pip/4530 "2021-10-28T13:00:15Z")

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Hi, I need itk 5.2 so I am trying to install itk python packages with pip. I am running a windows 10 64bit, python 3.7 within anaconda3 environment, Microsoft Visual Studio 2019. After installing pypi, cmake 3.21 & sci…

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## [ITK 5.1.0 has been released!](https://discourse.itk.org/t/itk-5-1-0-has-been-released/3164)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 3\
**Last updated:** [June 22, 2020, 4:21am UTC](https://discourse.itk.org/t/itk-5-1-0-has-been-released/3164 "2020-06-22T04:21:07Z")

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We are happy to announce the Insight Toolkit (ITK) 5.1.0 release! :tada: ITK is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration. ITK 5.1.0 is a featur…

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## [Building GATE with ITKImageIO support](https://discourse.itk.org/t/building-gate-with-itkimageio-support/3005)

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**Author:** [@somayehasadi](https://discourse.itk.org/u/somayehasadi)\
**Replies:** 18\
**Last updated:** [May 11, 2020, 1:17pm UTC](https://discourse.itk.org/t/building-gate-with-itkimageio-support/3005 "2020-05-11T13:17:11Z")

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Dear ITK users I work with the Monte Carlo based Code of GATE and work on hyperthermia. So I need to use the ITK for running the program related to the optic and thermal output and take the output with the format of .mh…

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## [Enable Issues on Cuberille Repository?](https://discourse.itk.org/t/enable-issues-on-cuberille-repository/2574)

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**Author:** [@DVigneault](https://discourse.itk.org/u/DVigneault)\
**Replies:** 2\
**Last updated:** [December 31, 2019, 3:14pm UTC](https://discourse.itk.org/t/enable-issues-on-cuberille-repository/2574 "2019-12-31T15:14:38Z")

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All– I’ve noticed that the itkcuberille repository on GitHub does not have Issues enabled–I believe this is because the repo is forked from the original Insight Journal repository, and issues are not enabled by default …

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## [New issue reporting templates](https://discourse.itk.org/t/new-issue-reporting-templates/1720)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 5\
**Last updated:** [May 6, 2019, 11:22am UTC](https://discourse.itk.org/t/new-issue-reporting-templates/1720 "2019-05-06T11:22:52Z")

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Special recognition and thanks go to @jhlegarreta, who did an awesome job improving our GitHub issue reporting templates. :tophat: :clap: Now, when creating a new issue, a menu of categories is presented: and the iss…

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## [Building strong ties in the community with GitHub Community Health Files](https://discourse.itk.org/t/building-strong-ties-in-the-community-with-github-community-health-files/1834)

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**Author:** [@jhlegarreta](https://discourse.itk.org/u/jhlegarreta)\
**Replies:** 1\
**Last updated:** [May 3, 2019, 8:28pm UTC](https://discourse.itk.org/t/building-strong-ties-in-the-community-with-github-community-health-files/1834 "2019-05-03T20:28:40Z")

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GitHub labels GitHub issues and pull requests can be labeled so that community members can clearly identify the areas the issues and contributions are related to. This helps a contributor grasp a clear picture of the t…

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## [ITK 50,000 Commit Celebration Hackathon](https://discourse.itk.org/t/itk-50-000-commit-celebration-hackathon/1737)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 5\
**Last updated:** [April 10, 2019, 2:02pm UTC](https://discourse.itk.org/t/itk-50-000-commit-celebration-hackathon/1737 "2019-04-10T14:02:15Z")

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Folks, Yesterday, we reached an epic milestone: With commit 17df267d7f8f5eb4a8073f600ca4295a1f5839f2 @hjmjohnson hit the 50,000’th commit in the ITK source code repository :tada: To celebrate 50,000 thoughts, 50,000 n…

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## [GitHub issue labels](https://discourse.itk.org/t/github-issue-labels/1256)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 14\
**Last updated:** [February 24, 2019, 2:28pm UTC](https://discourse.itk.org/t/github-issue-labels/1256 "2019-02-24T14:28:29Z")

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Hi folks, For our transition to GitHub for issue tracking: are there preferences for issue label names? Some proposed so far are Enhancement, Warning, CMake…

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## [Unable to commit to forked ITK repo on github](https://discourse.itk.org/t/unable-to-commit-to-forked-itk-repo-on-github/1611)

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**Author:** [@Gordian](https://discourse.itk.org/u/Gordian)\
**Replies:** 3\
**Last updated:** [February 20, 2019, 1:45pm UTC](https://discourse.itk.org/t/unable-to-commit-to-forked-itk-repo-on-github/1611 "2019-02-20T13:45:51Z")

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Hello, i have trouble to commit to my fork of the ITK. I would like to try and share my changes in my local group before making a pull request. I forked the ITK repo and cloned the fork to have a local copy. Afterwards…

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## [Two-factor authentication required for InsightSoftwareConsortium GitHub Org](https://discourse.itk.org/t/two-factor-authentication-required-for-insightsoftwareconsortium-github-org/1581)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 19\
**Last updated:** [February 16, 2019, 11:06pm UTC](https://discourse.itk.org/t/two-factor-authentication-required-for-insightsoftwareconsortium-github-org/1581 "2019-02-16T23:06:04Z")

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Hi folks, The community has been quite active on GitHub, and the project is growing! To improve our level of security, next week (Friday) I will enable the option on the InsightSoftwareConsortium to require two-factor …

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## [ITK 5.0 Release Candidate 1: Meshes](https://discourse.itk.org/t/itk-5-0-release-candidate-1-meshes/1576)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 2\
**Last updated:** [February 14, 2019, 1:07pm UTC](https://discourse.itk.org/t/itk-5-0-release-candidate-1-meshes/1576 "2019-02-14T13:07:16Z")

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We are happy to announce the Insight Toolkit (ITK) Release Candidate 1! :tada: As the first release candidate, the major advancements for ITK 5 have matured, and the community is encouraged to adopt the release candidat…

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## [GitHub bot to automatically close stale Issues and Pull Requests that tend to accumulate during a project](https://discourse.itk.org/t/github-bot-to-automatically-close-stale-issues-and-pull-requests-that-tend-to-accumulate-during-a-project/1592)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [February 11, 2019, 4:37pm UTC](https://discourse.itk.org/t/github-bot-to-automatically-close-stale-issues-and-pull-requests-that-tend-to-accumulate-during-a-project/1592 "2019-02-11T16:37:01Z")

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As suggested by @hjmjohnson, the probot-stale GitHub App has been installed on the ITK repository. :octopus: :bread: :older\_adult: As described in its documentation, this adds a bot that does the following: After a p…

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## [ITK 5.0 Beta 3: GitHub](https://discourse.itk.org/t/itk-5-0-beta-3-github/1504)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [January 4, 2019, 6:56pm UTC](https://discourse.itk.org/t/itk-5-0-beta-3-github/1504 "2019-01-04T18:56:20Z")

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We are happy to announce the Insight Toolkit (ITK) version 5 Beta 3 release! :tada: Downloads: Source code (zip) Source code (tar.gz) To install the 5.0 Beta 3 Python packages, run python -m pip install --upgrade pi…

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## [CDash GitHub Check](https://discourse.itk.org/t/cdash-github-check/1564)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 4\
**Last updated:** [February 5, 2019, 2:40pm UTC](https://discourse.itk.org/t/cdash-github-check/1564 "2019-02-05T14:40:26Z")

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Our CDash GitHub Check is back online, and improved! :tada: The status check is now listed as CDash: This status will be yellow (in progress), if there are expected builds in progress, red (failure) is any one of the…

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## [Planning for ITK 5.0 Beta 2 and GitHub Milestones](https://discourse.itk.org/t/planning-for-itk-5-0-beta-2-and-github-milestones/1443)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [November 27, 2018, 4:08am UTC](https://discourse.itk.org/t/planning-for-itk-5-0-beta-2-and-github-milestones/1443 "2018-11-27T04:08:18Z")

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Hi folks, I am planning to release ITK 5 Beta 2 on December 18th with a focus on the GitHub transition. A GitHub Milestone was created to help organize issues for this release. If you plan on working on an issue for th…

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## [Octobox to handle github notifications](https://discourse.itk.org/t/octobox-to-handle-github-notifications/1415)

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**Author:** [@phcerdan](https://discourse.itk.org/u/phcerdan)\
**Replies:** 2\
**Last updated:** [November 14, 2018, 7:47pm UTC](https://discourse.itk.org/t/octobox-to-handle-github-notifications/1415 "2018-11-14T19:47:19Z")

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Hey there, I am having some difficulties tracking Github notifications, there are so many since the transition to Github (which is great!), so I’ve found out this octobox, which provides something similar to an e-mail in…

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## [Merging temporarily suspended](https://discourse.itk.org/t/merging-temporarily-suspended/1396)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 9\
**Last updated:** [November 7, 2018, 8:30pm UTC](https://discourse.itk.org/t/merging-temporarily-suspended/1396 "2018-11-07T20:30:50Z")

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Hi folks, We are migrating the ITK repository mirroring from https://itk.org/ITK.git to https://github.com/InsightSoftwareConsortium/ITK.git Until this is complete, please do not merge topics via the Gerrit / stage …

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## [ITK Development Git Cheatsheet / Quick Reference PDF](https://discourse.itk.org/t/itk-development-git-cheatsheet-quick-reference-pdf/1398)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [November 6, 2018, 3:49pm UTC](https://discourse.itk.org/t/itk-development-git-cheatsheet-quick-reference-pdf/1398 "2018-11-06T15:49:16Z")

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In addition to our CONTRIBUTING.md documentation, and the Software Process section of the ITK Software Guide, we have an ITK development quick reference PDF: This has been updated for contribution on GitHub. :octopus: …

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## [itk-module GitHub Topic](https://discourse.itk.org/t/itk-module-github-topic/1203)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [August 15, 2018, 4:37pm UTC](https://discourse.itk.org/t/itk-module-github-topic/1203 "2018-08-15T16:37:34Z")

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Hi folks, To improve discoverability, we could add itk-module to a Remote Module repository’s GitHub Topics. Modules can then be found by clicking on the topic, which currently results in this list: https://github.com…

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## [ITK External Module GitHub builds for 4.X and 5.X](https://discourse.itk.org/t/itk-external-module-github-builds-for-4-x-and-5-x/900)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 4\
**Last updated:** [July 16, 2018, 6:09pm UTC](https://discourse.itk.org/t/itk-external-module-github-builds-for-4-x-and-5-x/900 "2018-07-16T18:09:45Z")

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As described in the ITKModuleTemplate README, it is possible to build and develop ITK modules on GitHub. The ITKModuleTemplate creates a configuration with continuous integration testing to build and test the module on L…

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## [Contribute to the ITK Software Guide on GitHub](https://discourse.itk.org/t/contribute-to-the-itk-software-guide-on-github/695)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 1\
**Last updated:** [February 21, 2018, 4:04pm UTC](https://discourse.itk.org/t/contribute-to-the-itk-software-guide-on-github/695 "2018-02-21T16:04:33Z")

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A major milestone in our transition to GitHub, migration of the contribution process for the ITKSoftwareGuide is now complete! :octopus: :heart\_eyes\_cat: :fireworks: Documentation An overview of the contribution process…

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## [GitHub status CDash link now available for ITK module repositories](https://discourse.itk.org/t/github-status-cdash-link-now-available-for-itk-module-repositories/598)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 7\
**Last updated:** [January 18, 2018, 7:27am UTC](https://discourse.itk.org/t/github-status-cdash-link-now-available-for-itk-module-repositories/598 "2018-01-18T07:27:07Z")

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When creating an ITK external module on GitHub with the ITKModuleTemplate, configuration for free continuous integration testing services are provided. This includes a CTest script that reports the results of a CircleCI …

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