- galaxy-announce - lists.galaxyproject.org

BCC2020 meeting will be held online
by Dave Clements 24 Mar '20

24 Mar '20

Hello all, The Organizing Committee of the 2020 Bioinformatics Community Conference (BCC2020, https://bcc2020.github.io/) has come to the difficult decision to hold the conference online. We are making this decision after much consideration of the ongoing spread of COVID-19, striving to take the most socially responsible action while maintaining a forum in which our community can share their work and discovery. It is hard to predict what things will look like in July, but given current reports and models, it seems unlikely that the situation will be back to “business as usual”. We also considered that, even if some people were able to attend, it is possible that many people would still find it difficult to travel to Toronto. We believe that making this decision now will allow us to focus on organizing an engaging conference in this new format. We will be inviting our community to engage in new ways, and hope that BCC2020 will be an important space for discussion for the Open Source bioinformatics community. The virtual meeting will still take place as planned, on July 18-21. There will be opportunities for training before the main meeting, and a CollaborationFest starting on July 22. We are discussing how to arrange the schedule to allow for participation across the globe; more details will be coming soon. Registration will open in a few weeks, and fees will be lower than for an in-person meeting. The abstract submission deadline has been postponed to April 30th. Abstracts will follow the usual submission and review processes. There are many details to be worked out – for example, a meeting schedule that takes into account time zones, videoconferencing technology, ways to enrich our online interactions (while acknowledging that nothing can replace the vital social interaction that in-person meetings provide), etc. Many of these aspects are new for us too; we welcome your input, particularly if you have suggestions about how to make our first Virtual Bioinformatics Community Conference a success. We are looking forward to exploring this new meeting format, and we hope you will join us. Stay well, BCC2020 Organizers -- https://galaxyproject.org/

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Release of Galaxy 20.01
by Marius van den Beek 27 Feb '20

27 Feb '20

Dear Community, The Galaxy Committers team is pleased to announce the release of Galaxy 20.01. The release announcement for developers and admins can be found at https://docs.galaxyproject.org/en/master/releases/20.01_announce.html and user facing release notes are at https://docs.galaxyproject.org/en/master/releases/20.01_announce_user.html. A few release highlights are: Workflow Executions Menu ------------------------ This menu can be reached from the User menu -> Workflow Invocations and lists your recent Workflow executions, their status and links to the Workflow Editor and the History with the results of the Workflow run. Enhanced workflow functionality ------------------------------- Workflows can now make use of optional datasets and optional parameters, optional parameter default values and dataset inputs can now be restricted to user-defined datatypes. The workflow editor and execution engine have been enhanced to allow defining options to choose from, and these options can be connected to compatible text, integer, float, color and select tool parameters for more flexible and universally reusable workflows Galay Markdown Pages and Workflow Reports as PDF ------------------------------------------------ An additional link has been added to Galaxy Markdown Pages and Workflow reports that exports your document as a standalone PDF. Screen Reader friendly Navigation -------------------------------- The top menu and the Workflow Editor have been improved for easier navigation using Screen Readers and the Keyboard. Email-notification for completed jobs ------------------------------------- You can now select to be notified by email when a tool run has finished. Check out the release notes for a lot more details - there are many more enhancements such as new interface elements, visualizations, datatypes and bug fixes as well as instructions for upgrading your Galaxy installation to Python 3. Thanks for using Galaxy!

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BCC2020 Training Topic Voting is Open
by Dave Clements 11 Feb '20

11 Feb '20

Hello all, The The Bioinformatics Community Conference (BCC2020) <https://bcc2020.github.io/>, will bring together the Galaxy Community Conference (GCC) and the Bioinformatics Open Source Conference (BOSC) in Toronto, Canada in July 2020, following ISMB 2020 <https://www.iscb.org/ismb2020> in Montréal. BCC2020 will start with a dedicated training day, followed by 3 days of mixed meeting and training events. The community (you!) determines what training will be offered at BCC2020. *Nominations from the community <https://bcc2020.github.io/training/>* are now ready for review and voting. If you are possibly attending BCC2020 then please take a few minutes to review the nominations and then submit your ballot <https://docs.google.com/forms/d/e/1FAIpQLSfmOowsHt0cL1ukiGvOdh7WxWKoSuT-3GM…>. Voting closes on February 21. Thanks in advance for your input, and we hope to see you in Toronto, BCC2020 Organizers -- https://galaxyproject.org/

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January Galaxy News: BCC2020, PAG & ABRF; New pubs, platforms, tutorials...
by Dave Clements 08 Jan '20

08 Jan '20

Hello all, The January 2020 Galactic News is out! https://galaxyproject.org/news/2020-01-galaxy-update/ - 13 Upcoming Events - BCC2020 training topic nominations, Register for Galaxy Admin Training, Galaxy @ PAG & ABRF, and training @ Earlham and Rennes. - 172 new publications - Six highlighted pubs from RT-qPCR to functional genomics - Two new blog posts - PGP-UK and Crowdsourcing Science - Galaxy Platform News - Three new platforms, UseGalaxy.* news, and platforms in pubs - Training material and doc updates - R, RStudio, ATAC-Seq, Scanpy, and Single Cell RNA-Seq - And other news too If you have anything to include to next month's newsletter, then please send it to outreach(a)galaxyproject.org. And a happy new year too, :-) Dave C on behalf of the Galaxy community -- https://galaxyproject.org/

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BCC2020 and Galaxy Admin Training
by Dave Clements 19 Dec '19

19 Dec '19

Hello all, There are three things going on that are of general interest to the Galaxy and GMOD communities, and that have some urgency to them (and thus this mid-month email). BCC2020 Schedule Structure ----------------------- The Bioinformatics Community Conference (BCC2020, https://bcc2020.github.io/) will be held in July, in Toronto, right after ISMB in Montréal. This event brings together the BOSC and Galaxy communities into one gathering. If you are considering attending BCC2020, then the organizers would like your input on several scheduling choices, BY JANUARY 7: https://bcc2020.github.io/blog/poll BCC2020 Training Topic Nominations ------------------------ The training offered at BCC2020 is determined by the community. We are now accepting nominations for training sessions. Nominated topics will be voted on by the community. Please submit your ideas by JANUARY 17. https://bcc2020.github.io/blog/training-nom 2020 Galaxy Admin Training ----------------------- A week long workshop on setting up your own production-grade Galaxy instance will be held in Barcelona the first week of March. Registration is now open, and is, well, pretty darn cheap too. https://galaxyproject.org/events/2020-03-admin/ And, of course, there is a lot of other stuff going on too: https://galaxyproject.org/events/ Happy Holidays, and hope to see you in the new year! Dave C, on behalf of the BCC2020 and Galaxy Admin Training organizers -- https://galaxyproject.org/

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December Galaxy News
by Dave Clements 09 Dec '19

09 Dec '19

Hello all, The December 2019 Galactic News is out! https://galaxyproject.org/news/2019-12-galaxy-update/ - 12 Upcoming Events - India, PAG, HTS, single cell/microbiome, Barcelona, and more - 191 new publications - Two new blog posts - g:Profiler, GalaxyP - Galaxy Platform News - Systems biology, Laniakea, OpenRefine, ... - Training material and doc updates - defining data types, citing GTN, Windows, account help, metatranscriptomics, Galaxy for everyone - Openings - with 5 organizations in Denmark, France, US, US, Germany - Releases - Galaxy 19.09 is out - And other news too Thanks for a superb year, and we are looking forward to an even better 2020. Dave C, on behalf of everyone -- https://galaxyproject.org/

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Release of Galaxy 19.09
by John Chilton 22 Nov '19

22 Nov '19

Dear Community, The Galaxy Committers team is pleased to announce the release of Galaxy 19.09. The release announcement for developers and admins can be found at https://docs.galaxyproject.org/en/master/releases/19.09_announce.html and user facing release notes are at https://docs.galaxyproject.org/en/master/releases/19.09_announce_user.html. A few release highlights are: Interactive Tools ---------------------- A new type of Galaxy tool has been implemented that allows interactive experiences like Galaxy Interactive Environments (via a proxy and Docker containers) but using plugins defined with Galaxy’s XML tool syntax. Workflow Invocation Reports --------------------------- Workflows may now define Markdown templates with Galaxy-specific embedded syntax extensions that can tie together workflow inputs, outputs, jobs, and metadata into rich reports. New Toolshed Client Interface ----------------------------- This project drove numerous enhancements to the Tool Shed API, including vastly improved search functionality. This interface has been completely re-imagined and feels much more interactive. Check out the release notes for a lot more details - there are many more enhancements such as new interface elements, visualizations, datatypes, and more. There are also important notes for Galaxy deployers - such as information about configuration changes in this release and the formal deprecation of Python 2.7 support (this will be the last release with formal support of Python 2). Thanks for using Galaxy!

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November Galaxy News
by Dave Clements 12 Nov '19

12 Nov '19

Hello all, The November 2019 Galactic News includes Galactic news under this or any other sun: * 19 Upcoming Events * 208 new publications * 2 new blog posts * Galaxy Platform News * Training material and doc updates * Openings with 5 organizations * Releases * Other news See https://galaxyproject.org/news/2019-11-galaxy-update/ for details. Thanks, Dave C -- https://galaxyproject.org/

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October Galaxy News: Events, pubs, platforms, jobs, training, and more
by Dave Clements 02 Oct '19

02 Oct '19

Hello all, The October 2019 Galactic News is out! https://galaxyproject.org/news/2019-10-galaxy-update/ There is, as always, a lot going on: - 20 Upcoming Events - 143 new publications - Galaxy Platform News - 6 Openings - Training material and doc updates - Other news too Check it out, Dave C and the Galaxy Community -- https://galaxyproject.org/

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September Galaxy News: INCOB, Galaxy Africa, ACM BCB, GTN, QFAB, ...
by Dave Clements 30 Aug '19

30 Aug '19

Hello all, The September 2019 Galactic news has been published: There are a bunch of upcoming events, including Galaxy @ INCOB, Galaxy Africa, two Bioconda / ToolShed events, a GTN CoFest, QFAB training, a Galaxy Netherlands gathering, (plus more than 20 more). We are also highlighting the new Climate Science Workbench Galaxy server, three recent blog posts, six doc & training updates, and 6 (or 11, depending on how you count) open positions. Find information on all this and more on the Galaxy Community Hub: https://galaxyproject.org/news/2019-09-galaxy-update/ And it's all in a spiffy new format. Hope to see you in Jakarta, Niagara Falls, Ghana, Brisbane, Utrecht, Sri Lanka, Ireland, online, ... Dave C and the Galaxy Community -- https://galaxyproject.org/

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