galaxy-dev March 2021

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3 participants
4 discussions

[GSoC2021] [OGI] Participation in Google Summer of Code 2021
by Robin Haw 15 Mar '22

15 Mar '22

Dear All, The Open Genome Informatics team serves as an “umbrella" organization to support the efforts of many open-access open-source bioinformatics projects for <https://summerofcode.withgoogle.com/> Google Summer of Code (GSoC<https://summerofcode.withgoogle.com/>). Among this list of projects are Reactome and GMOD and its software projects -- JBrowse; Galaxy; WormBase; and others. Call for 2021 Project Ideas and Mentors: We are seeking project ideas to post and attract talented students to this year’s Summer of Code competition. If you have a project idea for which you would like to mentor a student, please contact Robin Haw, Marc Gillespie, and Scott Cain (emails above). You can also submit your ideas here<http://gmod.org/wiki/GSOC_Project_Ideas_2021>. For more information please refer to the Open Genome Informatics page on the GMOD.org website<http://gmod.org/wiki/GSoC><http://gmod.org/wiki/GSoC#Google_Summer_of_Code_2020>. The mentoring organization application deadline with GSoC is February 19th at 2 pm EST. So, if you are interested in taking part with the team please let us know as soon as possible. Please forward this to others who might be interested in taking part. If you have any questions please let us know. Thanks, Robin, Marc, and Scott.

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March 2021 Galaxy Newsletter
by Dave Clements 17 Mar '21

17 Mar '21

Hello all, It is a very busy time in the Galaxy. 2021 is young, but we have already had two large training events, including the largest Galaxy event ever - the GTN Smörgåsbord (with an amazing 1100+ people registered). We are ramping up for GCC2021, which will be online, global, and affordable, and will be more accessible (and likely much larger) than an in-person Galaxy Community Conference. Galaxy is also shifting with the times, and to reflect how our community has grown. This newsletter includes a new *Featured News <https://galaxyproject.org/news/2021-03-galaxy-update/#featured-news>* section highlighting 1) the *recent explosion of videos* related to Galaxy, 2) a draft *global governance model for Galaxy*, and 3) the new *Galaxy Career Center.* That's followed by another new section highlighting *community news <https://galaxyproject.org/news/2021-03-galaxy-update/#community-news>.* Arguably, *everything* here is community news, but items listed here particularly emphasize the community aspects of Galaxy. The newsletter still includes sections on - *upcoming events <https://galaxyproject.org/news/2021-03-galaxy-update/#event-news>*, - news about *public Galaxy platforms <https://galaxyproject.org/news/2021-03-galaxy-update/#galaxy-platforms-news>* , - recent *blog posts <https://galaxyproject.org/news/2021-03-galaxy-update/#galactic-blog-activity>* , - *training and doc updates <https://galaxyproject.org/news/2021-03-galaxy-update/#doc-hub-and-training-…>* , - recent *open-access Galaxy-related publications <https://galaxyproject.org/news/2021-03-galaxy-update/#publications>*, and - *new releases <https://galaxyproject.org/news/2021-03-galaxy-update/#releases>.* It's a lot to take in, but it all highlights the breadth and depth of the Galaxy Community. Enjoy, Dave Clements and Beatriz Serrano-Solano, Editors [image: 2021-03-16_14-51-56-wordcloud.png] -- https://galaxyproject.org/

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Release of Galaxy 21.01
by Marius van den Beek 16 Mar '21

16 Mar '21

Dear Community, The Galaxy Committers team is pleased to announce the release of Galaxy 21.01. The release announcement for developers and admins can be found at https://docs.galaxyproject.org/en/master/releases/21.01_announce.html and user facing release notes are at https://docs.galaxyproject.org/en/master/releases/21.01_announce_user.html. A few release highlights are: Workflows: Best Practices, Reports, Invocations ---------------------------------------------------------------- Workflows have seen huge improvements in this release! The workflow report editor is easier than ever to use, providing you with a list of common report components, interactive interfaces for embedding them in your reports, and a new workflow invocation tracker. You can now embed visualizations directly in your workflow reports making summarizing your analyses easier than ever. And, once your reports are produced, you can export them directly to pages to share your reports with colleagues.If you’re building advanced workflows utilizing Galaxy’s powerful sub-workflows for reusable workflow components, then you’ll be pleased to know you can now automatically update those to the latest version Remote Files ------------------ The Remote Files interface is an absolutely fantastic new way to browse your data. Inside Galaxy there is a new, abstract way to reference files locally and on other servers. This lets us provide a uniform interface to FTP servers, your Dropbox, public S3 buckets, and more! You'll find this under Choose Remote Files in the upload interface. This interface is also used for importing and exporting histories. Beta History Panel ------------------------- The History Panel is getting a refresh and a huge performance boost in the latest code. Does this sound exciting to you? Try it out now with the history menu option "Use Beta History Panel". This is not its final state but we'd love feedback from you, the users, on how you find it. It features both performance and usability improvements. E.g. now you can rename files without going into a separate menu, just double click the dataset title! Performance Improvements ------------------------------------- This release includes many performance improvements for browsing and searching Data libraries, improved job creation performance for certain classes of tools and copying Histories, Datasets and Dataset Collections Offload Zip Archive Creation to NGINX --------------------------------------------------- Galaxy can now utilize the NGINX module mod_zip to assemble and compress dataset collection and library dataset archives on the fly. This method is more efficient and can create large archives without affecting the Galaxy server process. The required setup is described in the admin documentation for proxying Galaxy with NGINX. Check out the full release notes <https://docs.galaxyproject.org/en/master/releases/21.01_announce.html> for a lot more details, there are many more enhancements, new visualizations and bug fixes as well as instructions for upgrading your Galaxy installation. Thanks for using Galaxy!

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[GSoC2021] [OGI] Google Summer of Code 2021 is a Go!
by Robin Haw 15 Mar '21

15 Mar '21

Dear All, Sorry for the delay; it was a busy week. The good news is that we’ve been accepted for GSoC 2021. Here’s an update: * Responding to early interest from students. Please watch out for emails! * You can still submit your ideas here<http://gmod.org/wiki/GSOC_Project_Ideas_2021>. * Updating the GSoC org page to include new projects. * Setting up the mentors list. * Please send me your preferred email to subscribe you to the mentors list for the group. * To avoid emails being marked as spam please add summerofcode-noreply(a)google.com as a trusted contact. * GSoC timeline - https://summerofcode.withgoogle.com/dashboard/timeline/ * Since we have a few new mentors and projects, I wonder if we could have a meeting to discuss a few things. * Link - https://doodle.com/poll/ukfa9q7xh3pav3nx?utm_source=poll&utm_medium=link Our next landmark date is 29th March, when students can start applying to our organization. Thanks, Robin Robin Haw, PhD Reactome | JBrowse - Senior Project Manager and Outreach Co-ordinator robin.haw(a)oicr.on.ca<mailto:robin.haw@oicr.on.ca> Adaptive Oncology Ontario Institute for Cancer Research MaRS Centre, 661 University Avenue, Suite 510, Toronto, Ontario, Canada M5G 0A3 @OICR_news | www.oicr.on.ca<http://www.oicr.on.ca> | @reactome | reactome.org<http://reactome.org> | @JBrowseGossip | jbrowse.org<http://jbrowse.org> Collaborate. Translate. Change lives. This message and any attachments may contain confidential and/or privileged information for the sole use of the intended recipient. Any review or distribution by anyone other than the person for whom it was originally intended is strictly prohibited. If you have received this message in error, please contact the sender and delete all copies. Opinions, conclusions or other information contained in this message may not be that of the organization.

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galaxy-dev March 2021