The terms of use for the Galaxy Project's free Galaxy server, http://usegalaxy.org (a.k.a. Main) specify 

In the past we have dealt with multiple accounts on an ad-hoc basis.  Moving forward we will use an automated system to detect, disable, and eventually delete duplicate accounts.  If the automated system determines that your account is a duplicate, your account will be disabled and you will receive an email asking you if this is the account you wish to keep.  If it is, please follow the directions in the email and your access to that account will be restored.

If your account is suspended and you believe that you are not in violation of Main's terms of use, then please contact <terms_and_conditions AT galaxyproject DOT org>.

Thanks,

The Galaxy Team

The next meeting of the GalaxyAdmins Group will be held on May 15, 2013, at 10 AM Central US time. 

Andrew Warren of the Cyberinfrastructure Division of the Virginia Bioinformatics Institute at Virginia Tech will talk about their Galaxy deployment at Pathogen Portal, a highly customized Galaxy installation, and also about the group's objectives and future plans.

Dannon Baker will bring the group up to speed on what's happening in the Galaxy project.

We use the Blackboard Collaborate Web Conferencing system for the meetup. Downloading the required applets in advance and using a headphone with microphone to prevent audio feedback during the call is recommended.

GalaxyAdmins is a discussion group for Galaxy community members who are responsible for large Galaxy installations. 

Dave Clements

The May 2013 Galaxy Update is now available. 

Highlights:

• the GCC2013 early registration deadline is 24 May.

• 39 new papers

• Open Positions at five different institutions

• Other Upcoming Events

• Galaxy Distributions

• Tool Shed Contributions

• Other News

If you have anything you would like to see in the June Galaxy Update, please let us know.

Dave Clements and the Galaxy Team

A new paper, "BioBlend: automating pipeline analyses within Galaxy and CloudMan," by Clare Sloggett, Nuwan Goonasekera and Enis Afgan has just been published in Bioinformatics. BioBlend is

Documentation is available at ReadTheDocs.  BioBlend can be installed with PyPI, and the source code is at GitHub.

Dave Clements

A new UK-China collaboration in environmental metabolomics between the University of Birmingham, BGI and GigaScience has received funding from the UK’s Natural Environment Research Council (NERC).

The first metabolomics project will send a developer from the University of Birmingham’s School of Biosciences, to Hong Kong to work with GigaScience personnel on extending Galaxy for use in metabolomics data analyses.

"Metabolomics involves the detection and quantification of small molecules (metabolites) in living organisms and can provide an indication of their cellular condition and health. The toxicological responses of organisms to pollutants can be studied using environmental metabolomics, enabling researchers to discover diagnostic markers for monitoring and risk assessment of our environment. Research at Birmingham focuses extensively on the metabolic responses of the freshwater model organism, Daphnia, to both pollutants and engineered nanomaterials."

See the official announcement for more details.

Peter Li
GigaScience

Galaxy will have a significant presence at the 61st ASMS Conference on Mass Spectrometry and Allied Topics being held in Minneapolis, Minnesota, June 9-13.  Galaxy related content includes the Galaxy Framework as a Solution for MS-based Informatics workshop and at least 9 posters either directly about or using Galaxy.

If you do research in proteomics than please consider attending.

Dave Clements

A security vulnerability was recently discovered that would allow a malicious person to delete the contents of a history that does not belong to them.  The vulnerability was in a method designed to allow users to switch between histories as a convenience from certain messages and is not used for most normal history switching operations.  A fix has been provided in the stable branch of the Galaxy distribution and tagged as security_2013.04.08.  Administrators are strongly encouraged to upgrade to at least the listed tag or to implement one of the provided workarounds. This changeset is not included in the most recent (April 1, 2013) stable release.

To upgrade:

   1 % hg pull
   2 % hg update security_2013.04.08

Additional details, including workarounds for those who are unable or unwilling to perform a full upgrade, can be found in the mailing list announcement.

Thanks for using Galaxy,

The Galaxy Team

The 2013 Galaxy Community Conference (GCC2013) and BioMed Central are announcing a special thematic series in GigaScience, a new journal co-published in collaboration between BGI Shenzhen and BioMed Central focused on studies utilizing large-scale datasets and workflows. Galaxy is an open, web-based platform for data intensive biomedical research allowing their growing community of users to reproduce and share analyses. All accepted oral presentations from the meeting will be eligible for consideration in the series, and working with the scientific committee, peer review will be coordinated, thorough and timely. BGI has been generously covering the open-access article-processing charges for the journal’s launch, and this offer will be extended to all submissions from the 2013 conference. 

Covering the themes of the conference, discussion and research is considered highlighting best practice for local Galaxy installation, management and use, as well as interesting tools, data sources, or novel uses of Galaxy. Addressing many of the goals of Galaxy to enable more accessible, reproducible, and transparent genomic science, submissions can utilize a novel format, where all of the workflows, tools and supporting data can be hosted and integrated into accepted papers using independently citable digital object identifiers from the journal's Giga-Galaxy server and GigaDB database.

Please contact the conference organizers <gcc2013-sci@galaxyproject.org> or GigaScience editors <editorial@gigasciencejournal.com> for further information, or submit a manuscript or conference abstract, mentioning you would like to be considered in the series. The deadline for consideration for oral presentations to the meeting is 12^th April, but later submissions for exceptional poster presentations (deadline 3^rd May) and related work utilizing Galaxy may also be considered for the open series.

Scott Edmunds
Executive Editor
GigaScience

The April 2013 Galaxy Update is now available. 

Highlights:

• the GCC2013 oral presentation abstract deadline is 12 April, which is less than 2 weeks away.  Early registration, and poster abstract submission are also open.

• Two new public Galaxy servers are featured

• The slides and screencast for the March GalaxyAdmins meetup are available.

  • And, please help determine what the GalaxyAdmins group should focus on

• 32 new papers and 5 new tags

• Open Positions at six different institutions

• Other Upcoming Events

• Galaxy Distributions

• Tool Shed Contributions

• Other News

If you have anything you would like to see in the May Galaxy Update, please let us know.

Dave Clements and the Galaxy Team

Complete News Brief

• Job running configuration changes and refactoring of job runner plugins

• Required reset of the metadata on your installed tool shed repositories plus Changes required to your environment if you are hosting a local Tool Shed

• Basic Data Manager Functionality now present

• Tool Shed, Trackster, Cloudman, Workflows, UI, Admin, and new Pull Request updates.

• New bug fixes and improvements.

http://getgalaxy.org

http://bitbucket.org/galaxy/galaxy-dist

http://galaxy-dist.readthedocs.org

new:     $ hg clone https://bitbucket.org/galaxy/galaxy-dist#stable

upgrade: $ hg pull 
         $ hg update security_2013.04.08

Thanks for using Galaxy,

The Galaxy Team

A Galaxy Group now exists on LinkedIn.  The group is open to anyone and is a forum to post announcements, discussions, and jobs of interest to the Galaxy community.

Note that this is not an official support forum for the Galaxy Project.  Please continue to use the mailing lists for that purpose.

If you are on LinkedIn, please consider joining the group today.

Dave Clements and the Galaxy Team