diff --git a/_config.yml b/_config.yml
index 8f8b860f..fcd14995 100644
--- a/_config.yml
+++ b/_config.yml
@@ -24,7 +24,7 @@ url: https://www.mdanalysis.org
baseurl:
author:
name: The MDAnalysis Team
- url: https://www.mdanalysis.org/pages/team/
+ url: https://www.mdanalysis.org/team/
email: mdanalysis@numfocus.org
images: /public/images
diff --git a/_posts/2023-05-18-save-date-ugm2023.md b/_posts/2023-05-18-save-date-ugm2023.md
index b9fa5187..6d1bc466 100644
--- a/_posts/2023-05-18-save-date-ugm2023.md
+++ b/_posts/2023-05-18-save-date-ugm2023.md
@@ -20,10 +20,10 @@ Whether you are a new MDAnalysis contributor, an MDAnalysis core developer, or a
* Networking opportunities to foster new collaborations
* Hackathon and other social outings
-Additional details of the schedule and call for proposals will be communicated soon. In the meantime, save the date and keep an eye out for additional announcements on our [blog][blog] and [UGM website page][ugmPage], as well as on our [Twitter][twitter] and [LinkedIn][linkedin] accounts.
+Additional details of the schedule and call for proposals will be communicated soon. In the meantime, save the date and keep an eye out for additional announcements on our [News] and [UGM website page][ugmPage], as well as on our [Twitter][twitter] and [LinkedIn][linkedin] accounts.
[uniL]: https://www.ulisboa.pt/en/unidade-organica/faculty-sciences
-[blog]: https://www.mdanalysis.org/blog/
+[News]: https://www.mdanalysis.org/blog/
[ugmPage]: https://www.mdanalysis.org/pages/ugm2023/
[twitter]: https://twitter.com/mdanalysis
[linkedin]: https://www.linkedin.com/company/mdanalysis/
diff --git a/_posts/2023-12-21-github-discussions.md b/_posts/2023-12-21-github-discussions.md
index 9978a473..574d328a 100644
--- a/_posts/2023-12-21-github-discussions.md
+++ b/_posts/2023-12-21-github-discussions.md
@@ -22,7 +22,7 @@ The mailing lists will remain open for a bit longer to finish off open discussio
\- Rocco Meli, on behalf of the [MDAnalysis Team][]
-[MDAnalysis Team]: {{ site.url }}{% link pages/team.md %}
+[MDAnalysis Team]: {{ site.url }}{% link team.md %}
[GitHub Discussions]: https://github.com/MDAnalysis/mdanalysis/discussions
[Q&A]: https://github.com/MDAnalysis/mdanalysis/discussions/categories/q-a
[mdnalysis-devel]: https://groups.google.com/g/mdnalysis-devel
diff --git a/_posts/2024-01-15-mda_events.md b/_posts/2024-01-15-mda_events.md
index a373bfbd..d4aec5df 100644
--- a/_posts/2024-01-15-mda_events.md
+++ b/_posts/2024-01-15-mda_events.md
@@ -46,10 +46,10 @@ Additional details about registration and a call for proposals will be communica
More than 70 people joined us live on October 25, 2023 for a free online workshop, during which 4 instructors (@fiona-naughton, @ianmkenney, @micaela-matta, @richardjgowers) introduced the MDAnalysis package and demonstrated use cases through interactive tutorials; the [recording](https://www.youtube.com/watch?v=njzoNzOwR78) is now available on our [YouTube](https://www.youtube.com/@mdanalysis3040) channel. @micaela-matta led the first lecture/tutorial on the Basics of MDAnalysis, and @richardjgowers led a lecture/tutorial on positions, distances, and trajectories; all instructors helped answer participant questions throughout the workshop. Prior to the workshop, @ianmkenney answered participant questions during an optional installation troubleshooting block. All workshop materials and installation instructions are publicly available on the [MDAnalysis/MDAnalysisWorkshop2023](https://github.com/MDAnalysis/MDAnalysisWorkshop2023/) GitHub repository.
-We will soon be announcing a series of additional workshops taking place in 2024. These workshops are planned to accommodate both beginner and more advanced MDAnalysis users across differing time zones. We are also working on some exciting collaborations to offer workshops on more specialized topics! Stay tuned for updates on our [blog][], [X][], and [LinkedIn][] pages.
+We will soon be announcing a series of additional workshops taking place in 2024. These workshops are planned to accommodate both beginner and more advanced MDAnalysis users across differing time zones. We are also working on some exciting collaborations to offer workshops on more specialized topics! Stay tuned for updates on our [News][], [X][], and [LinkedIn][] pages.
-[blog]: https://www.mdanalysis.org/blog/
+[News]: https://www.mdanalysis.org/blog/
[X]: https://twitter.com/mdanalysis
[LinkedIn]: https://www.linkedin.com/company/mdanalysis/
diff --git a/_posts/2024-09-11-mda_2024events.md b/_posts/2024-09-11-mda_2024events.md
index 059b0adb..c7bcb40a 100644
--- a/_posts/2024-09-11-mda_2024events.md
+++ b/_posts/2024-09-11-mda_2024events.md
@@ -145,9 +145,9 @@ style="float: left; height: 5em; " />
We would like to again thank everyone who helped us make these workshops a success, including the participants, instructors, teaching assistants, and workshop organizers! If you or your organization are interested in partnering with MDAnalysis to organize future workshops, you are always welcome to fill out our [Google form](https://docs.google.com/forms/d/e/1FAIpQLSf5-c4kE_trtA1ciSFcLLRsiFASHY-rXuFu7y902pqUgPDppg/viewform?usp=sf_link) to discuss further.
-To stay up-to-date on all MDAnalysis event offerings, be sure to follow our [blog][], [X][], [LinkedIn][], and [Bluesky][] pages.
+To stay up-to-date on all MDAnalysis event offerings, be sure to follow our [News][], [X][], [LinkedIn][], and [Bluesky][] pages.
-[blog]: https://www.mdanalysis.org/blog/
+[News]: https://www.mdanalysis.org/blog/
[X]: https://twitter.com/mdanalysis
[LinkedIn]: https://www.linkedin.com/company/mdanalysis/
[Bluesky]: https://bsky.app/profile/mdanalysis.bsky.social
diff --git a/_posts/2024-11-22-release-2.8.0.md b/_posts/2024-11-22-release-2.8.0.md
index e35b3313..3c62186f 100644
--- a/_posts/2024-11-22-release-2.8.0.md
+++ b/_posts/2024-11-22-release-2.8.0.md
@@ -281,8 +281,8 @@ the [Chan Zuckerberg Initiative][] for supporting MDAnalysis under EOSS4 and EOS
[CHANGELOG]: https://github.com/MDAnalysis/mdanalysis/blob/release-2.8.0/package/CHANGELOG
[Chan Zuckerberg Initiative]: https://chanzuckerberg.com/
[licensing update]: {{ site.baseurl }}{% post_url 2023-09-22-licensing-update %}
-[roles]: {{ site.baseurl }}/pages/team/#roles
-[MDAnalysis Team]: {{ site.baseurl }}/pages/team
+[roles]: {{ site.baseurl }}/team/#roles
+[MDAnalysis Team]: ({{ site.baseurl }}/team/)
[MDAKits]: https://mdakits.mdanalysis.org/
[roadmap]: {{ site.baseurl }}{% post_url 2023-10-25-towards_3.0 %}#a-trimmed-down-core-library
[mdaencore]: https://mdakits.mdanalysis.org/mdaencore.html
diff --git a/_posts/2025-02-14-new_coredevs.md b/_posts/2025-02-14-new_coredevs.md
index 858d8777..89844da1 100644
--- a/_posts/2025-02-14-new_coredevs.md
+++ b/_posts/2025-02-14-new_coredevs.md
@@ -55,7 +55,7 @@ If a candidate has shown a history of participating in these activities, they ar
Finally, being an active Core Developer requires some amount of active participation in meetings, decisions, and other administrative business. As MDAnalysis does not have any guaranteed long-term funding, this work is usually unpaid. Therefore, the final decision to accept or decline the election is left to the developers themselves: do they have the time and willingness to keep contributing?
-If you are interested in becoming a Core Developer, we highly encourage you to [participate]({{ site.baseurl }}/#participating) in some of the activities listed above, especially reviewing pull requests and mentoring other developers. Learn more about the many roles MDAnalysis community members take on to move the project forward on our [MDAnalysis team]({{ site.baseurl }}/pages/team) page, and reach out to us on our [GitHub discussions forum]({{ site.mailinglists.discussion.url }}) or [Discord server]({{ site.discord.url }}) (join the server using the invitation link, [{{ site.discord.invite }}]({{ site.discord.invite }}). On our end, the MDAnalysis Core Developer team will, to the best of its abilities, aim to offer mentorship and other opportunities to people who express an interest in becoming a Core Developer.
+If you are interested in becoming a Core Developer, we highly encourage you to [participate]({{ site.baseurl }}/#participating) in some of the activities listed above, especially reviewing pull requests and mentoring other developers. Learn more about the many roles MDAnalysis community members take on to move the project forward on our [MDAnalysis team]({{ site.baseurl }}/team) page, and reach out to us on our [GitHub discussions forum]({{ site.mailinglists.discussion.url }}) or [Discord server]({{ site.discord.url }}) (join the server using the invitation link, [{{ site.discord.invite }}]({{ site.discord.invite }}). On our end, the MDAnalysis Core Developer team will, to the best of its abilities, aim to offer mentorship and other opportunities to people who express an interest in becoming a Core Developer.
Being a Core Developer is work, but it’s also a fantastic opportunity to work with and for a wonderful and welcoming community. As part of [our mission]({{ site.baseurl }}/about/#mission), we welcome anyone who cares for this community and wants to help it grow.
diff --git a/_posts/2025-03-11-release-2.9.0.md b/_posts/2025-03-11-release-2.9.0.md
index bbeb18bb..f2848e53 100644
--- a/_posts/2025-03-11-release-2.9.0.md
+++ b/_posts/2025-03-11-release-2.9.0.md
@@ -129,7 +129,7 @@ the [Chan Zuckerberg Initiative][] for supporting MDAnalysis under EOSS4 and EOS
[NumFOCUS]: https://www.numfocus.org
[CHANGELOG]: https://github.com/MDAnalysis/mdanalysis/blob/release-2.9.0/package/CHANGELOG
[Chan Zuckerberg Initiative]: https://chanzuckerberg.com/
-[roles]: {{ site.baseurl }}/pages/team/#roles
-[MDAnalysis Team]: {{ site.baseurl }}/pages/team
+[roles]: {{ site.baseurl }}/team/#roles
+[MDAnalysis Team]: {{ site.baseurl }}/team
[MDAKits]: https://mdakits.mdanalysis.org/
[distopia]: https://github.com/MDAnalysis/distopia
diff --git a/about.md b/about.md
index 865056fb..b3cd31b7 100644
--- a/about.md
+++ b/about.md
@@ -1,7 +1,7 @@
---
layout: page
title: About MDAnalysis
-order: 10
+order: 1
---
MDAnalysis is an open-source project dedicated to advancing molecular dynamics analysis through a robust software library, an active community, and sustainable governance. Our tools enable high-performance, reproducible computational studies supporting researchers across academia and industry.
-The MDAnalysis Project is committed to open-source, reproducible computational research. Our [Mission]({{ site.baseurl }}/mission/) guides our efforts in developing robust tools, fostering an inclusive community, and supporting scientists worldwide.
+The MDAnalysis Project is committed to open-source, reproducible computational research. Our [Mission]({{ site.baseurl }}/pages/mission/) guides our efforts in developing robust tools, fostering an inclusive community, and supporting scientists worldwide.
## Get Involved
-- **Follow Our Code of Conduct:** We foster a welcoming, inclusive environment. Read our [Code of Conduct]({{ site.baseurl }}/conduct/) before participating.
-- **Join the Community:** Connect with other users, report issues, and contribute through multiple channels. Learn more on our [Community]({{ site.baseurl }}/pages/community/) page.
-- **Contribute:** Whether through coding, documentation, community support, or event organization, you can help shape the MDAnalysis ecosystem. Get started with our [Contributing Guide]({{ site.baseurl }}/pages/contribute/) or [join a team]({{ site.baseurl }}/pages/team/) to support specific initiatives.
+- **Follow Our Code of Conduct:** We foster a welcoming, inclusive environment. Read our [Code of Conduct]({{ site.baseurl }}/pages/conduct/) before participating.
+- **Join the Community:** Connect with other users, report issues, and contribute through multiple channels. Learn more on our [Community]({{ site.baseurl }}/community/) page.
+- **Contribute:** Whether through coding, documentation, community support, or event organization, you can help shape the MDAnalysis ecosystem. Get started with our [Contributing Guide]({{ site.baseurl }}/contribute/) or [join a team]({{ site.baseurl }}/team/) to support specific initiatives.
- **Support MDAnalysis:** MDAnalysis relies on grants, sponsorships, and donations to sustain development and community events. Your support helps fund maintenance, development, UGMs (User Group Meetings), workshops, and more. Learn more on our [Funding]({{ site.baseurl }}/pages/funding/) page.
- **Share your Feedback:** MDAnalysis welcomes feedback for improvement from its users and community. Share your thoughts on MDAnalysis, the community, or events by filling out [this feedback form][].
@@ -23,7 +23,7 @@ The MDAnalysis Project is committed to open-source, reproducible computational r
MDAnalysis is maintained by the [Core Developers]({{ site.baseurl }}/pages/governance/#mdanalysis-core-developers) who lead the project and make key decisions regarding its development. Past contributors who've stepped back become Emeriti Core Developers.
-Our governance structure ensures transparency and sustainability. See our [Governance]({{ site.baseurl }}/pages/governance/) and [Team]({{ site.baseurl }}/pages/team/) pages for more details.
+Our governance structure ensures transparency and sustainability. See our [Governance]({{ site.baseurl }}/pages/governance/) and [Team]({{ site.baseurl }}/team/) pages for more details.
## Funding & Sponsors
@@ -44,12 +44,11 @@ MDAnalysis is:
- **Easy to install** — Available via `pip`, `conda/mamba` and `conda-forge`.
- **Openly developed** — The [source code]({{ site.github.repo }}) is hosted on GitHub.
-- **Regularly updated** — Official releases are distributed via [PyPI][].
+- **Regularly updated** — Official releases are distributed via [PyPI]({{ site.pypi.package }}).
-For full installation instructions and setup guides, visit our [Getting Started]({{ site.baseurl }}/pages/getting_started/) page.
+For full installation instructions and setup guides, visit our [Getting Started]({{ site.baseurl }}/getting_started/) page.
[GNU Lesser General Public License, version 2.1 or later (LGPLv2.1+)]: https://www.gnu.org/licenses/lgpl-2.1.html
-[PyPI]: https://pypi.org/project/MDAnalysis/
[this feedback form]: https://docs.google.com/forms/d/e/1FAIpQLScAjjI730i63LbyVkk_tuZ1-FCXUkg6xFugw_gmcsqUvBUtnw/viewform?usp=sf_link
[NumFOCUS]: https://www.numfocus.org
diff --git a/blog/index.html b/blog/index.html
index 91142459..a81fe294 100644
--- a/blog/index.html
+++ b/blog/index.html
@@ -1,7 +1,7 @@
---
layout: page
-title: Blog
-order: 12
+title: News
+order: 2
---
diff --git a/pages/citations.md b/citations.md
similarity index 99%
rename from pages/citations.md
rename to citations.md
index 1a83683d..7a76fabd 100644
--- a/pages/citations.md
+++ b/citations.md
@@ -1,7 +1,7 @@
---
layout: page
title: Citations
-order: 9
+order: 11
---
MDAnalysis and the included algorithms are scientific software that
diff --git a/pages/community.md b/community.md
similarity index 76%
rename from pages/community.md
rename to community.md
index 37ad7821..b8057504 100644
--- a/pages/community.md
+++ b/community.md
@@ -1,7 +1,7 @@
---
layout: page
title: Community
-order: 5
+order: 6
---
MDAnalysis is developed and maintained as a freely available, open-source project by a global community of scientists. Our community adheres to our [Code of Conduct]({{ site.baseurl }}/pages/conduct/) and welcomes everyone to participate—whether through GitHub Discussions, issue reports, or code contributions.
@@ -11,7 +11,7 @@ in a file called `AUTHORS` in each source code repository and in the list of
contributions; for example, see the [`AUTHORS` file for mdanalysis](https://github.com/MDAnalysis/mdanalysis/blob/develop/package/AUTHORS) and the [contributors for
mdanalysis](https://github.com/MDAnalysis/mdanalysis/graphs/contributors).
-MDAnalysis is widely used in scientific research and is described in various [academic publications]({{site.baseurl}}/pages/citations/). It also serves as the foundation for several other [molecular dynamics tools]({{site.baseurl}}/pages/mdakits/).
+MDAnalysis is widely used in scientific research and is described in various [academic publications]({{site.baseurl}}/citations/). It also serves as the foundation for several other [molecular dynamics tools]({{site.baseurl}}/mdakits/).
This page provides an overview of **how you can engage with the MDAnalysis community, where to seek support, and how to participate**.
@@ -19,9 +19,10 @@ This page provides an overview of **how you can engage with the MDAnalysis commu
Follow our official channels for news, updates, and major announcements:
-- [Blog]({{ site.baseurl }}/blog/) — News, development highlights, tutorials, and releases.
+- [News]({{ site.baseurl }}/blog/) — News, development highlights, tutorials, and releases.
- [LinkedIn](https://www.linkedin.com/company/mdanalysis/) — Professional networking, project updates, event announcements, and industry connections.
- [Bluesky](https://bsky.app/profile/mdanalysis.bsky.social) — Community-driven discussions and project insights.
+- [Events]({{ site.baseurl }}/events/) — Upcoming (and past) user group meetings, workshops, and hackathons.
## Ask Questions & Get Help
@@ -33,7 +34,7 @@ Need help with MDAnalysis? Choose the right platform for your needs:
## Contribute
-If you are interested in contributing to MDAnalysis, visit our [Contribute]({{ site.baseurl }}/pages/contribute/) page for guidelines on how to get involved. Whether it’s improving documentation, fixing bugs, or adding new features, every contribution helps strengthen the project and its community.
+If you are interested in contributing to MDAnalysis, visit our [Contribute]({{ site.baseurl }}/contribute/) page for guidelines on how to get involved. Whether it’s improving documentation, fixing bugs, or adding new features, every contribution helps strengthen the project and its community.
diff --git a/pages/contribute.md b/contribute.md
similarity index 87%
rename from pages/contribute.md
rename to contribute.md
index 1ed24c0f..ab3b160a 100644
--- a/pages/contribute.md
+++ b/contribute.md
@@ -1,7 +1,7 @@
---
layout: page
title: Contribute
-order: 6
+order: 8
---
MDAnalysis is an open-source project that welcomes and encourages contributions from the community. Whether you're a developer, documentation writer, or interested in improving the website, there are many ways to get involved.
@@ -10,13 +10,13 @@ You can contribute by **developing new features, fixing bugs, improving document
Contributions also extend to our **mentoring and outreach programs**, where participants gain hands-on experience in open-source development and scientific software. You can also contribute by **mentoring new contributors**, helping them navigate MDAnalysis, review their work, and share best practices.
-If you're new, you can start by participating in community conversations and mentoring programs. For more information on how you can participate, check out the [Community]({{ site.baseurl }}/pages/community/) and [Events]({{ site.baseurl }}/pages/events/) pages.
+If you're new, you can start by participating in community conversations and mentoring programs. For more information on how you can participate, check out the [Community]({{ site.baseurl }}/community/) and [Events]({{ site.baseurl }}/events/) pages.
The [MDAnalysis Project][] hosts several open-source repositories beyond the main library and MDAKits. You are welcome to contribute to any of them! Each repository typically has a `CONTRIBUTING.md` file to help you get started. If you’re unsure where to begin, you can:
- Check the repository’s issue tracker for open tasks.
- Submit a pull request for improvements.
-- Contact maintainers via [GitHub discussions][] or MDAnalysis [Community]({{ site.baseurl }}/pages/community/) forums.
+- Contact maintainers via [GitHub discussions][] or MDAnalysis [Community]({{ site.baseurl }}/community/) forums.
This page provides an overview of how you can contribute to the [Codebase](#contributing-to-the-codebase), [MDAKits](#contributing-to-mdakits), [Documentation](#contributing-to-the-documentation), or [Mentoring & Outreach Programs](#mentoring--outreach-programs).
@@ -74,7 +74,7 @@ The [API reference]({{ site.docs.mdanalysis.url }}/stable/index.html) is **autom
MDAnalysis has actively participated in various mentoring and outreach programs **to help students, researchers, and early-career contributors gain experience in open-source development and scientific software**. Through these programs, participants receive mentorship, contribute to real-world projects, and develop valuable skills in computational science and software engineering.
### Stay informed
-For the latest announcements, deadlines, and project ideas, check out our [blog]({{ site.baseurl }}/blog/) where we share updates on participation and application guidelines.
+For the latest announcements, deadlines, and project ideas, check out our [News]({{ site.baseurl }}/blog/) where we share updates on participation and application guidelines.
We have been involved in several mentoring initiatives:
@@ -93,24 +93,24 @@ We have been involved in several mentoring initiatives:
- **[CompChemURG](https://www.bindingsites.co.uk/home)** \
A mentoring initiative focused on computational chemistry, supporting undergraduates and early-career researchers in gaining expertise in the field.
-Many of our [core developers]({{ site.baseurl }}/governance/#mdanalysis-core-developers) started through these programs — consider joining and becoming part of the MDAnalysis community!
+Many of our [core developers]({{ site.baseurl }}/pages/governance/#mdanalysis-core-developers) started through these programs — consider joining and becoming part of the MDAnalysis community!
### GSoC
MDAnalysis has participated in Google Summer of Code for several years, mentoring students on a variety of open-source projects. Explore our past projects:
-- [GSoC 2025]({% post_url 2025-02-28-gsoc2025 %})
-- [GSoC 2024]({% post_url 2024-02-27-gsoc2024 %})
-- [GSoC 2023]({% post_url 2023-02-22-gsoc2023 %})
-- [GSoC 2022]({% post_url 2022-03-07-gsoc2022 %})
-- [GSoC 2021]({% post_url 2021-03-09-gsoc2021 %})
-- [GSoC 2020]({% post_url 2020-02-22-gsoc2020 %})
-- [GSoC 2019]({% post_url 2019-03-04-gsoc2019 %})
-- [GSoC 2018]({% post_url 2018-02-14-gsoc2018 %})
-- [GSoC 2017]({% post_url 2017-03-02-gsoc2017 %})
+- [GSoC 2025]({% post_url 2025-05-23-gsoc-students %})
+- GSoC 2024 — [Small Projects]({% post_url 2024-08-30-gsoc2024-final-sm %}); [Large Projects]({% post_url 2025-02-11-gsoc2024-final-lg %})
+- [GSoC 2023]({% post_url 2024-01-18-gsoc2023-final %})
+- [GSoC 2022]({% post_url 2022-12-15-gsoc_outreachy2022-final %})
+- [GSoC 2021]({% post_url 2021-9-14-gsoc2021-final %})
+- [GSoC 2020]({% post_url 2020-09-10-gsoc2020-final %})
+- [GSoC 2019]({% post_url 2019-05-24-gsoc-students %})
+- [GSoC 2018]({% post_url 2018-04-26-gsoc-students %})
+- [GSoC 2017]({% post_url 2017-06-04-gsoc-students %})
- [GSoC 2016]({% post_url 2016-04-26-gsoc %})
## Other Contributions
-If you are interested in contributing in other ways, such as writing a **blog post**, we welcome contributions that document your experience with MDAnalysis — whether it's learning the software, participating in a UGM, or working on a project. Feel free to reach out via the [Community]({{ site.baseurl }}/pages/community/) page for guidance on submitting a post.
+If you are interested in contributing in other ways, such as writing a **blog post**, we welcome contributions that document your experience with MDAnalysis — whether it's learning the software, participating in a user group meeting, or working on a project. Feel free to reach out via the [Community]({{ site.baseurl }}/community/) page for guidance on submitting a post.
If you are interested in improving our website, you can refer to the [README file][] in the [Website Repository][]. While the website is already maintained by the MDAnalysis team, any fixes and updates are always welcome.
diff --git a/pages/documentation.md b/documentation.md
similarity index 59%
rename from pages/documentation.md
rename to documentation.md
index 6cf96629..8159a9d4 100644
--- a/pages/documentation.md
+++ b/documentation.md
@@ -1,10 +1,10 @@
---
layout: page
title: Documentation
-order: 3
+order: 5
---
-The MDAnalysis library (`import MDAnalysis`) is open-source code, available under the [GNU Lesser General Public License, version 2.1 or later (LGPLv2.1+)](https://www.gnu.org/licenses/lgpl-2.1.html). MDAnalysis provides **comprehensive documentation** to help users at all levels—whether you're just getting started, developing new tools, or contributing to the project. From **step-by-step tutorials** to an in-depth **API reference**, these resources will guide you through installing, using, and extending MDAnalysis.
+The [MDAnalysis library]({{ site.github.repo }}) (`import MDAnalysis`) is open-source code, available under the [GNU Lesser General Public License, version 3 or later (LGPLv3+)](https://www.gnu.org/licenses/lgpl-3.0.html). MDAnalysis provides **comprehensive documentation** to help users at all levels—whether you're just getting started, developing new tools, or contributing to the project. From **step-by-step tutorials** to an in-depth **API reference**, these resources will guide you through installing, using, and extending MDAnalysis.
The MDAnalysis Project maintains many other software projects related to working with data in the molecular sciences, which can be found under the [MDAnalysis GitHub organization](https://github.com/MDAnalysis).
@@ -19,9 +19,9 @@ The [User Guide]({{ site.docs.userguide.url }}) is the best place for new users
The [API Reference]({{ site.docs.mdanalysis.url }}) offers detailed documentation on all MDAnalysis modules, classes, and functions—perfect for developers and advanced users.
## MDAnalysis Paper
-Learn about the design philosophy and scientific impact of MDAnalysis in the [MDAnalysis paper]({{ site.baseurl }}/pages/citations#Gowers2016).
+Learn about the design philosophy and scientific impact of MDAnalysis in the [MDAnalysis paper]({{ site.baseurl }}/citations#Gowers2016).
---
-If you need help or have ideas, visit our [Community]({{ site.baseurl }}/pages/community) page to learn about available discussion channels.
+If you need help or have ideas, visit our [Community]({{ site.baseurl }}/community) page to learn about available discussion channels.
diff --git a/pages/events.md b/events.md
similarity index 92%
rename from pages/events.md
rename to events.md
index 4fa68e53..b8bdaf43 100644
--- a/pages/events.md
+++ b/events.md
@@ -1,23 +1,25 @@
---
layout: page
title: Events
-order: 4
+order: 7
---
MDAnalysis hosts and participates in various **community-driven events, user group meetings (UGMs), workshops, and hackathons** to foster collaboration and learning.
This page provides information on **upcoming and past events**, including **UGMs, workshops, and talks**. Whether you're a developer, researcher, or new to the field, these events provide opportunities to engage with and contribute to the MDAnalysis ecosystem.
-For the latest discussions, **join the MDAnalysis community channels** by visiting our [Community]({{ site.baseurl }}/pages/community/) page.
+For the latest discussions, **join the MDAnalysis community channels** by visiting our [Community]({{ site.baseurl }}/community/) page.
-For mentoring programs and outreach opportunities, please visit the [Contribute]({{ site.baseurl }}/pages/contribute/) page.
+For mentoring programs and outreach opportunities, please visit the [Contribute]({{ site.baseurl }}/contribute/) page.
+## Upcoming Events
+
+| **Title and Website** | **Date(s)** | **Format** | **Additional Links** |
+| ----- | ------- | ------ | -------------- |
+| [UGM 2025]({{ site.baseurl }}/pages/ugm2025/) | Nov 9-11, 2025 | Hybrid | [Announcement]({% post_url 2025-04-13-ugm2025 %}) |
## User Group Meetings (UGMs)
@@ -70,7 +72,7 @@ Workshop materials are made publicly available under open source licenses. Recor
## Hosting Your Own MDAnalysis Workshops
**Have you previously hosted/Are you already organizing an MDAnalysis workshop?** [Let us know][partner-workshops], as we would love to help you spread the word and share information about your event.
-**Would you like to host your own MDAnalysis workshop**, but don't know where to get started, have questions on available workshop materials, or would like to seek other support from the [MDAnalysis workshop team]({{ site.baseurl }}/pages/team/)? [Get in touch][partner-workshops] to let us know how we can best support you.
+**Would you like to host your own MDAnalysis workshop**, but don't know where to get started, have questions on available workshop materials, or would like to seek other support from the [MDAnalysis workshop team]({{ site.baseurl }}/team/)? [Get in touch][partner-workshops] to let us know how we can best support you.
[YouTube channel]: https://www.youtube.com/@mdanalysis3040
diff --git a/pages/getting_started.md b/getting_started.md
similarity index 93%
rename from pages/getting_started.md
rename to getting_started.md
index 20f3926e..00fdbba5 100644
--- a/pages/getting_started.md
+++ b/getting_started.md
@@ -1,7 +1,7 @@
---
layout: page
title: Getting Started
-order: 1
+order: 3
---
MDAnalysis is a Python library for analyzing molecular dynamics (MD) simulations. This page will guide you through quickly installing MDAnalysis, exploring a basic example, and accessing learning resources to get started.
@@ -46,8 +46,8 @@ In the following example, the end-to-end distance of a protein and the radius of
## Learning Resources
To find out what else you can do, head over to [Learning
-MDAnalysis]({{ site.baseurl }}/pages/learning_MDAnalysis) to explore
+MDAnalysis]({{ site.baseurl }}/learning_MDAnalysis/) to explore
tutorials and documentation.
-If you have questions, visit our [Community]({{ site.baseurl }}/pages/community) page to learn about available discussion channels. Happy coding!
+If you have questions, visit our [Community]({{ site.baseurl }}/community/) page to learn about available discussion channels. Happy coding!
diff --git a/index.md b/index.md
index 6d77c06e..07bd37d7 100644
--- a/index.md
+++ b/index.md
@@ -21,9 +21,9 @@ Learn more about our **mission, development, team, and governance** on the [Abou
If you're new to *MDAnalysis*, explore the following resources to install the `MDAnalysis` package, access tutorials, and dive into the documentation:
-- [Getting Started]({{ site.baseurl }}/pages/getting_started/)
-- [Learning MDAnalysis]({{ site.baseurl }}/pages/learning_MDAnalysis)
-- [Documentation]({{ site.baseurl }}/pages/documentation)
+- [Getting Started]({{ site.baseurl }}/getting_started/)
+- [Learning MDAnalysis]({{ site.baseurl }}/learning_MDAnalysis/)
+- [Documentation]({{ site.baseurl }}/documentation/)
## Community
@@ -31,24 +31,25 @@ MDAnalysis is driven by an active **community of users and contributors**. Stay
-- [Community]({{ site.baseurl }}/pages/community/) — Get involved, ask questions, and collaborate.
-- [Blog]({{ site.baseurl }}/blog) — Stay updated with development news and community highlights.
-- [Events]({{ site.baseurl }}/pages/events/) — Join workshops, conferences, and mentoring programs.
+- [News]({{ site.baseurl }}/blog) — Stay updated with development news and community highlights.
+- [Community]({{ site.baseurl }}/community/) — Get involved, ask questions, and collaborate.
+- [Events]({{ site.baseurl }}/events/) — Join workshops, conferences, and mentoring programs.
## Contributing
Want to contribute to MDAnalysis? Here’s how:
-- [Contribute]({{ site.baseurl }}/pages/contribute/) — Learn how to help improve MDAnalysis through coding, documentation, or discussions.
-- [MDAKits and MDA-based tools]({{ site.baseurl }}/pages/mdakits/) — Build and extend MDAnalysis with MDAKits.
+- [Contribute]({{ site.baseurl }}/contribute/) — Learn how to help improve MDAnalysis through coding, documentation, or discussions.
+- Join a [Team]({{ site.baseurl}}/team/) — Express your interest in contributing to any of the roles related to sustaining the MDAnalysis project.
+- [MDAKits and MDA-based tools]({{ site.baseurl }}/mdakits/) — Build and extend MDAnalysis with MDAKits.
- [Support MDAnalysis financially](#funding--support) — Donate via NumFOCUS to sustain the project.
## Citing MDAnalysis
-If you use MDAnalysis in your research, please cite it appropriately and consider displaying our MDAnalysis badge in your projects. All citation formats and badge instructions are available in our [Citation guidelines]({{ site.baseurl }}/pages/citations/).
+If you use MDAnalysis in your research, please cite it appropriately and consider displaying our MDAnalysis badge in your projects. All citation formats and badge instructions are available in our [Citation guidelines]({{ site.baseurl }}/citations/).
-Additionally, consider displaying our badge in your projects that use MDAnalysis. We provide several [embedding markup examples]({{ site.baseurl }}/pages/citations/#powered-by-mdanalysis).
+Additionally, consider displaying our badge in your projects that use MDAnalysis. We provide several [embedding markup examples]({{ site.baseurl }}/citations/#powered-by-mdanalysis).
[](https://www.mdanalysis.org)
diff --git a/pages/learning_MDAnalysis.md b/learning_MDAnalysis.md
similarity index 95%
rename from pages/learning_MDAnalysis.md
rename to learning_MDAnalysis.md
index 073c5974..149362e0 100644
--- a/pages/learning_MDAnalysis.md
+++ b/learning_MDAnalysis.md
@@ -1,19 +1,19 @@
---
layout: page
title: Learning MDAnalysis
-order: 3
+order: 4
---
MDAnalysis is a powerful Python library for analyzing MD simulations. While primarily designed to help you build custom analysis tools, it also supports interactive data exploration in environments like [IPython](http://ipython.org/) and [Jupyter notebooks](https://jupyter.org/), especially when combined with [pandas](http://pandas.pydata.org/). This makes MDAnalysis an excellent choice for rapid prototyping and exploratory analysis.
-MDAnalysis is an academic software package, and if you use it in your research, please cite the relevant publications. For details on how to cite MDAnalysis, visit our [Citations]({{ site.baseurl }}/pages/citations/) page.
+MDAnalysis is an academic software package, and if you use it in your research, please cite the relevant publications. For details on how to cite MDAnalysis, visit our [Citations]({{ site.baseurl }}/citations/) page.
Whether you're new to MDAnalysis or looking to deepen your expertise, this page will guide you through our learning resources.
## Step-by-Step Guide to Learning MDAnalysis
1. **Install MDAnalysis**
- Follow the instructions in [Getting Started]({{ site.baseurl }}/pages/getting_started/) to install MDAnalysis.
+ Follow the instructions in [Getting Started]({{ site.baseurl }}/getting_started/) to install MDAnalysis.
2. **Quickstart Tutorial**
Begin with the [{{ site.docs.quickstart.name }}]({{ site.docs.quickstart.url }}) tutorial to write and run your first MDAnalysis script.
@@ -25,12 +25,12 @@ Whether you're new to MDAnalysis or looking to deepen your expertise, this page
Browse additional learning resources and code examples in our Tutorials repository.
5. **Full Documentation**
- For in-depth technical details, visit the [Documentation]({{ site.baseurl }}/pages/documentation/) page.
+ For in-depth technical details, visit the [Documentation]({{ site.baseurl }}/documentation/) page.
6. **Watch MDAnalysis videos**
Learn from conference talks, workshops, and webinars presented by core developers. Explore the [Videos](#videos) section below and our [YouTube channel](https://www.youtube.com/channel/UC3TCuK-z_bJNdwWCvsH9D3Q).
-If you need help, check out our [Community]({{ site.baseurl }}/pages/community/) page.
+If you need help, check out our [Community]({{ site.baseurl }}/community/) page.
## Videos
diff --git a/pages/mdakits.md b/mdakits.md
similarity index 99%
rename from pages/mdakits.md
rename to mdakits.md
index 6c432661..4a822331 100644
--- a/pages/mdakits.md
+++ b/mdakits.md
@@ -1,7 +1,7 @@
---
layout: page
-title: MDAKits and MDA-based tools
-order: 5
+title: MDAKits
+order: 10
---
MDAnalysis is developed with extensibility in mind, allowing
diff --git a/conduct.md b/pages/conduct.md
similarity index 100%
rename from conduct.md
rename to pages/conduct.md
diff --git a/mission.md b/pages/mission.md
similarity index 100%
rename from mission.md
rename to pages/mission.md
diff --git a/pages/ugm2024.md b/pages/ugm2024.md
index 86b8132b..5553630d 100644
--- a/pages/ugm2024.md
+++ b/pages/ugm2024.md
@@ -110,7 +110,7 @@ While we will be unable to enforce social distancing guidelines during the UGM,
## Code of Conduct
All members of the MDAnalysis community and participants in this UGM are expected to abide by the MDAnalysis [Code of Conduct][coc] (CoC).
-If you are attending the UGM and wish to make a report, you may contact the [CoC Committee members](https://www.mdanalysis.org/pages/team/#roles) or other event staff/organizers so that they can take any appropriate immediate response. If you would prefer not to do that, please [submit a report][coc_report] to MDAnalysis.
+If you are attending the UGM and wish to make a report, you may contact the [CoC Committee members](https://www.mdanalysis.org/team/#roles) or other event staff/organizers so that they can take any appropriate immediate response. If you would prefer not to do that, please [submit a report][coc_report] to MDAnalysis.
## Who to Contact
If you have any questions or special requests related to the UGM, you may [contact the organizing committee][ugm_email].
diff --git a/pages/ugm2025.md b/pages/ugm2025.md
index 79b0b2cb..42b74bb1 100644
--- a/pages/ugm2025.md
+++ b/pages/ugm2025.md
@@ -202,7 +202,7 @@ You can find the [long version of the Code of Conduct](https://numfocus.org/code
### How to report
-If you feel that the Code of Conduct has been violated, feel free to submit a report, by using the [NumFOCUS Code of Conduct Reporting Form](https://numfocus.typeform.com/to/ynjGdT?typeform-source=numfocus.org). For an [appropriate *immediate* response](https://numfocus.org/code-of-conduct-archive/response-and-enforcement-events-meetups), you may contact the [CoC Committee members](https://www.mdanalysis.org/pages/team/#roles) or other event staff/organizers, who will introduce themselves to you at the event.
+If you feel that the Code of Conduct has been violated, feel free to submit a report, by using the [NumFOCUS Code of Conduct Reporting Form](https://numfocus.typeform.com/to/ynjGdT?typeform-source=numfocus.org). For an [appropriate *immediate* response](https://numfocus.org/code-of-conduct-archive/response-and-enforcement-events-meetups), you may contact the [CoC Committee members](https://www.mdanalysis.org/team/#roles) or other event staff/organizers, who will introduce themselves to you at the event.
### Who will receive your report
Your report will be received and handled by the NumFOCUS Code of Conduct Working Group; trained, and experienced contributors with diverse backgrounds. The group is making decisions independently from the MDAnalysis project, PyData, NumFOCUS or any other organization.
diff --git a/pages/privacy.md b/privacy.md
similarity index 99%
rename from pages/privacy.md
rename to privacy.md
index a3f94317..332ad768 100644
--- a/pages/privacy.md
+++ b/privacy.md
@@ -1,7 +1,7 @@
---
layout: page
title: Privacy Policy
-order: 13
+order: 12
---
MDAnalysis is a [fiscally sponsored
diff --git a/pages/team.md b/team.md
similarity index 88%
rename from pages/team.md
rename to team.md
index 46a3ac53..abc64b8c 100644
--- a/pages/team.md
+++ b/team.md
@@ -1,7 +1,7 @@
---
layout: page
-title: MDAnalysis team
-order: 11
+title: MDAnalysis Team
+order: 9
---
MDAnalysis is a community-driven project that is made possible through the efforts of many members who contribute in numerous and diverse ways, ranging from direct package development, maintenance, documentation, communication, and managerial responsibilities. On this page we list identified project roles and team members for each of those roles. We note that the listed roles on this page can differ significantly in scope and required effort.
@@ -10,7 +10,7 @@ We also invite community members to reach out to [mdanalysis@numfocus.org](mailt
## Roles
-In this section we list major contributors who are currently devoting substantial effort to the roles listed below. This team organisation structure was started in November 2023; many people contributed to these tasks before then and may not appear in this table, in particular the [emeritus core developers]({{ site.url }}{% link about.md %}#mdanalysis-emeriti-core-developers).
+In this section we list major contributors who are currently devoting substantial effort to the roles listed below. This team organisation structure was started in November 2023; many people contributed to these tasks before then and may not appear in this table, in particular the [emeritus core developers]({{ site.baseurl }}/pages/governance/#mdanalysis-emeriti-core-developers).
Names are listed in *alphabetical* order.