April 2015 - galaxy-announce - lists.galaxyproject.org

GCC2015 Registration is Open!
by Dave Clements 27 Apr '15

27 Apr '15

Hello all, We are tremendously pleased (and more than a little relieved) to announce that *registration for GCC2015 is now open <http://gcc2015.tsl.ac.uk/registration/>*. The 2015 Galaxy Community Conference <http://gcc2015.tsl.ac.uk/> includes 2 days of hackathons, 2 days of training, and a two day meeting <http://gcc2015.tsl.ac.uk/programme/> featuring accepted presentations, keynotes, poster sessions, lightning talks, birds-of-a-feather meetups, and plenty of networking. GCC2015 is hosted by The Sainsbury Laboratory <http://www.tsl.ac.uk/>, in Norwich, UK, and events run 4-8 July. Registration costs <http://gcc2015.tsl.ac.uk/registration/> depend on which events you register for <http://gcc2015.tsl.ac.uk/programme/>, your career stage/affiliation <http://gcc2015.tsl.ac.uk/registration/>, and when you register <http://gcc2015.tsl.ac.uk/registration/>*(register by 22 May - really, it will save you plenty).* Early bird registration starts at less than £40 / day for students and postdocs, and at £55 / day for other attendees from non-profits. You can also sign up for conference housing <http://gcc2015.tsl.ac.uk/logistics/#Lodging> during (and only during) registration. We apologize profusely for the delay in opening registration, and we thank you for your patience and faith. We promise the conference will againbe spectacular <https://wiki.galaxyproject.org/GalaxyProject/Statistics#Events> . Dave Clements <https://wiki.galaxyproject.org/DaveClements> and Martin Page <http://www.tsl.ac.uk/staff/martin-page/>, on behalf of the GCC2015 Organising Committee <http://gcc2015.tsl.ac.uk/organisers/>. PS: *And don't forget the poster abstract <http://gcc2015.tsl.ac.uk/Abstracts> submission deadline is 1 May.* -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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Galaxy Tool Shed security vulnerability
by Nate Coraor 23 Apr '15

23 Apr '15

*Please note: This notice affects Galaxy Tool Shed servers only. Galaxy servers are unaffected.* A security vulnerability was recently discovered by Daniel Blankenberg of the Galaxy Team that would allow a malicious person to execute arbitrary code on a Galaxy Tool Shed server. The vulnerability is due to reuse of tool loading code from Galaxy, which executes "code files" defined by Galaxy tool config files. Because the Tool Shed allows any user to create and "load" tools, any user could cause arbitrary code to be executed by the Tool Shed server. In Galaxy, administrators control which tools are loaded, which is why this vulnerability does not affect Galaxy itself. Although we recommend upgrading to the latest stable version (15.03.2), a fix for this issue has been committed to Galaxy versions from 14.08 and newer. If you are using Mercurial, you can update with (where YY.MM corresponds to the Galaxy release you are currently running): % hg pull % hg update release_YY.MM If you are using git, you can update with (assuming your remote upstream is set to https://github.com/galaxyproject/galaxy/) If you have not yet set up a remote tracking branch for the release you are using: % git fetch upstream % git checkout -b release_YY.MM upstream/release_YY.MM Otherwise: % git pull upstream release_YY.MM For the changes to take effect, *you must restart all Tool Shed server processes*. Credit for the arbitrary code execution fix also goes to my fellow Galaxy Team member Daniel Blankenberg. On behalf of the Galaxy Team, --nate

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GCC2015 Registration and Lodging Scholarship for US-Based Post-Docs and Students
by Dave Clements 21 Apr '15

21 Apr '15

Hello all, *We are pleased to offer registration <http://gcc2015.tsl.ac.uk/registration> and lodging <http://gcc2015.tsl.ac.uk/logistics/#Lodging> scholarships for GCC2015 for students and post-docs who are based in the United States, and who are members of historically underrepresented groups in life science research.* These scholarships cover registration costs <http://gcc2015.tsl.ac.uk/registration> for any GCC2015 events <http://gcc2015.tsl.ac.uk/proigramme> the recipients sign up for, and also covers lodging <http://gcc2015.tsl.ac.uk/logistics/#Lodging> during those events in the official conference lodging <http://gcc2015.tsl.ac.uk/logistics/#Lodging> on the nearby UEA campus. *The scholarships do not cover travel or other expenses.* To apply for a scholarship qualifying applicants need to 1. Submit a poster abstract <http://bit.ly/gcc2015sub>. *The deadline is May 1* 2. Have a faculty member / PI send a letter of recommendation to the Galaxy Community Fund Board <community-fund(a)lists.galaxyproject.org> no later than May 15. 3. Submit an application form <http://bit.ly/gcc2015scholarship>, no later than May 1. 4. Have sufficient funds to cover your travel and other expenses. Applicants will be notified of their scholarship status no later than May 19. Scholarships are funded by the *Galaxy Community Fund*. The Galaxy Community Fund was established with the surplus funds from GCC2014, and is currently administered by the GCC2014 organizers. Please do let us know if you have any questions, and we hope to see you at GCC2015 <http://gcc2015.tsl.ac.uk/>! Galaxy Community Fund Board <community-fund(a)lists.galaxyproject.org> -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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GCC2015 Oral Presentation Abstract Submission closes 20 April
by Dave Clements 20 Apr '15

20 Apr '15

Hello all, Just a reminder that oral presentation abstract submission for GCC2015 closes on Monday, 20 April, 5 days from now. Poster submission closes 1 May. See http://gcc2015.tsl.ac.uk/Abstracts for more. The 2015 Galaxy Community Conference is an opportunity to share your work with 200+ other researchers working in data-intensive biology. GCC2015 features 2 days of (2 different) hackathons, 2 days of training, and 2 days of meeting, posters, presentations, birds of a feather, and networking. See http://gcc2015.tsl.ac.uk/ for more on GCC2015. Looking forward to seeing you in July in Norwich! Dave C. On Wed, Feb 25, 2015 at 12:04 AM, Dave Clements <clements(a)galaxyproject.org> wrote: > Hello all, > > *We are pleased to announce that abstract submission for Oral and Poster > Presentations <http://gcc2015.tsl.ac.uk/Abstracts> at the 2015 Galaxy > Community Conference (GCC2015) <http://gcc2015.tsl.ac.uk/> is now open.* > > Abstract submission <http://gcc2015.tsl.ac.uk/Abstracts> for oral > presentations closes 10 April, and poster submission closes 1 May. Poster > authors will be notified of acceptance status within two weeks of > submission, while oral presentation authors will be notified no later than > 24 April. *Please consider presenting your work. If you are dealing with > big biological data, then this meeting wants to hear about it.* > > *About GCC2015* > > GCC2015 <http://gcc2015.tsl.ac.uk/> is hosted by The Sainsbury Lab > <http://www.tsl.ac.uk/>, in Norwich, United Kingdom > <http://www.visitnorwich.co.uk/>, in July 2015. GCC has been expanded > this year and will now offer two hackathons, two Training Days, and a two > day conference <http://gcc2015.tsl.ac.uk/programme/>. The Training Days > <http://gcc2015.tsl.ac.uk/training-day/> cover 15 different topics > spanning the full Galactic spectrum of topics. *Take a look > <http://gcc2015.tsl.ac.uk/programme/>.* > > Thanks, > > GCC2015 Organising Committee <http://gcc2015.tsl.ac.uk/organisers/> > > -- > http://galaxyproject.org/ > http://getgalaxy.org/ > http://usegalaxy.org/ > https://wiki.galaxyproject.org/ > -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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April! Galactic News!
by Dave Clements 02 Apr '15

02 Apr '15

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