logistics are on the GMOD Americas 2011 page.
This meeting, and all GMOD Americas 2011 events, are jointly sponsored by
NESCent and the Galaxy Project.
Hope to see you in North Carolina!
Dave Clements
Galaxy Project
PS: And I hope to see you in the Netherlands as well! *The abstract
submission
:
http://gmod.org/wiki/March_2011_GMOD_Meeting
On Tue, Feb 1, 2011 at 9:19 PM, Dave Clements clementsgal...@gmail.comwrote:
Hello all,
We are pleased to announce the *2011 Galaxy Community Conference*, being
held *May 25-26 in Lunteren, The Netherlands*. The meeting will feature
two full days
Hi George,
Thanks to your suggestion and work by Nate Coraor, Galaxy now has an IRC
channel:
Server: irc.freenode.net
Channel: #galaxyproject
This is an informal online gathering place for the Galaxy community to post
questions and help each other out.
Note that while IRC is conducive
*To:* Dave Clements; Galaxy Dev List; Galaxy User List
*Cc:* Carrie Iwema; Dan Blankenberg
*Subject:* Re: [galaxy-user] Around Pittsburgh on April 6? Attend the
Intro to Galaxy Sessions @ Pitt
Hi
Will this we available as a webiner or webcast for us who are located out
side of Penn state
speakers. More will be added
in the coming weeks as the schedule firms up.
http://galaxy.psu.edu/gcc2011/Programme.html
Please let me know if you have any questions, and hope to see you in May,
Dave C.
On Tue, Feb 1, 2011 at 9:19 PM, Dave Clements clementsgal...@gmail.comwrote:
Hello all,
We
Hi Olen, Yury, and all other digesters,
I've bounced the threshold for new digests up from 30KB to 300KB. Mailman
will still send out a digest at the end of the day, even if that threshold
is not hit.
Thanks for pointing this out.
Dave C.
On Thu, Apr 14, 2011 at 2:08 PM, Olen Vance Sluder Jr
Hello all,
There will be two Galaxy workshops at the University of Southern California
(USC) next week. Both are presented by Jeremy Goecks of Emory University and
the Galaxy team. *Both workshops are open to the public:*
*Galaxy: A web‐based workbench for interactive and reproducible analysis
Hello all,
It is my pleasure to announce that Galaxy has a new wiki:
http://galaxyproject.org/wiki. This wiki contains all the content from the
old bitbucket wiki, plus a bunch of new content (most of which is still work
in progress).
The new wiki is based on MoinMoin and includes several new
Hello all,
The new Galaxy wiki features a Galaxy News page and RSS feed for items of
interest to the Galaxy community. The news page is a good way to get
information out to the community and is less intrusive than posting to the
Galaxy mailing lists. Anyone can create a news items by following
Hello all
The Galaxy Project is growing and has open positions in both the Penn State
and Emory groups (http://wiki.g2.bx.psu.edu/News/Galaxy%20is%20Hiring).
*Penn State: System administrators/analysts*
The Nekrutenko Lab http://www.bx.psu.edu/%7Eanton/ at the Huck Institutes
of Life Sciences
Hi Oren,
This book chapter
http://userwww.service.emory.edu/~eafgan/content/Galaxy_eScienceGateway.pdf,
includes a high-level overview of Galaxy. (Note: that chapter will be
copied to the wiki soon.)
There is some API documentation.
~/scripts/api/README,
~/scripts/api/workflow_
execute.py and
-krumlov/
Features Galaxy and much more.
*Application deadline is November 1.*
Český Krumlov, Czech Republic
James Taylor http://wiki.g2.bx.psu.edu/JamesTaylor
January 14-18 2012
Galaxy Session @ GMOD Workshop
PAG 2012 http://www.intlpag.org/, San Diego, California, United States
Dave Clements
Hello all,
There is a new mailing list in the Galaxy: Galaxy-Announce.
Galaxy-Announce is a *moderated, low-volume *mailing list.
Galaxy-Announce complements the existing Galaxy-User (about the public
server at UseGalaxy.org) and Galaxy-Dev (deployment and development)
mailing lists. However,
Hi Gretel,
I just read the rest of my inbox. It appears that you are not the only
person experiencing problems with the history panel today.
Someone from Galaxy will get back to you once we have this figured out.
Thanks,
Dave C.
On Mon, Dec 5, 2011 at 8:44 AM, Dave Clements cleme
/xx/webprogrampreliminary/Paper4623.html@
Cloud
Computing
Sessionhttp://pag.confex.com/pag/xx/webprogrampreliminary/Session1139.html
*
PAG 2012 http://wiki.g2.bx.psu.edu/Events/PAG2012, San Diego, California,
United States
Dave Clements http://wiki.g2.bx.psu.edu/DaveClements
Dannon Baker
January
://www.citeulike.org/group/16008/order/group_rating - Galaxy Group
list of papers
Thanks,
Dave Clements
PS: To cite the Galaxy Project, see
http://galaxyproject.org/wiki/Citing%20Galaxy.
--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://galaxyproject.org/wiki
#Searching.
We strongly encourage you to give these try. Please send feedback and
suggestions to Galaxy Outreach outre...@galaxyproject.org.
Happy searching (and a Happy New Year!),
Dave Clements
--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://galaxyproject.org/wiki
, and on
deploying Galaxy in the cloud, and talks and posters on using Galaxy and
several local Galaxy deployments.
See the Galaxy @ PAG2012 page (http://wiki.g2.bx.psu.edu/Events/PAG2012)
and the conference website (http://www.intlpag.org/) for more information.
Dannon Baker and Dave Clements from the Galaxy Team
Institute http://www.ci.anl.gov/.
Links:
http://galaxyproject.org/GCC2012
http://galaxyproject.org/wiki/Events/GCC2012/Abstracts
Thanks,
Dave Clements
--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://galaxyproject.org/wiki
Hello all,
The March 2012 Galaxy
Updatehttp://wiki.g2.bx.psu.edu/GalaxyUpdates/2012_02is now
available.
*Galaxy Update http://wiki.g2.bx.psu.edu/GalaxyUpdates* is a (mostly)
monthly summary of what is going on in the Galaxy community. *Galaxy Updates
* complements the *Galaxy Development News
Hello all,
Just a reminder that the abstract submission deadline for the 2012 Galaxy
Community Conference (GCC2012) is TODAY. See
http://wiki.g2.bx.psu.edu/Events/GCC2012/Abstracts for details.
Thanks,
Dave C
On Mon, Apr 9, 2012 at 2:03 PM, Dave Clements cleme...@galaxyproject.orgwrote
/2012_05#Tool_Shed_Contributions
As always, if you have anything you would like to see in the June *Galaxy
Update http://wiki.g2.bx.psu.edu/GalaxyUpdates*, please let me know.
Thanks,
Dave Clements
--
http://galaxyproject.org/GCC2012 http://galaxyproject.org/wiki/GCC2012
http://galaxyproject.org
for the duplicate emails,
Dave C.
On Mon, May 14, 2012 at 1:13 PM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hello all,
The 2012 Galaxy Community Conference (GCC2012), being held in Chicago,
Illinois, July 25-27, is *now just 10 weeks away*. We have updates on:
1. Help set the topics covered
Hi Tom,
The cloud image has the reference data for hg19 and mm9. However, it does
not come with fully configured loc files for every tool that takes
advantage of all that preloaded data. Try updating the loc file for the
Extract Genomic DNA tool.
Dave C.
On Wed, May 23, 2012 at 11:07 AM,
Hi Tom,
An update from the CloudMan developers: This will be fixed in the next
release, which is imminent.
Thanks,
Dave C.
On Thu, May 24, 2012 at 11:04 AM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hi Tom,
The cloud image has the reference data for hg19 and mm9. However, it does
.
See you in Chicago!
Dave Clements, on behalf of the GCC2012 Organizing
Committeehttp://galaxyproject.org/wiki/Events/GCC2012/Organizing%20Committee
Links:
http://galaxyproject.org/GCC2012 http://galaxyproject.org/wiki/GCC2012
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http
would like to see in the August *Galaxy
Updatehttp://wiki.g2.bx.psu.edu/GalaxyUpdates
*, please let me know.
Thanks,
Dave Clements
--
http://galaxyproject.org/GCC2012 http://galaxyproject.org/wiki/GCC2012
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http
/2012_08#New_Distributions
-
Other News http://wiki.g2.bx.psu.edu/GalaxyUpdates/2012_08#Other_News
If you have anything you would like to see in the September *Galaxy
Updatehttp://wiki.g2.bx.psu.edu/GalaxyUpdates
*, please let me know.
Thanks
Dave Clements
--
http://galaxyproject.org/wiki
Hi Jianguang,
I went to http://galaxy.psu.edu/search/web/ and searched for cummerbund.
It looks like there is a cummerbund wrapper in the test Galaxy Tool Shed,
but that is about it.
Dave C
On Fri, Aug 24, 2012 at 3:23 PM, Du, Jianguang jia...@iupui.edu wrote:
Dear All,
I am going to
Galaxy,
Rejoignez nous en vous inscrivant à
http://lists.bx.psu.edu/listinfo/galaxy-france
Les archives de cette liste sont disponibles à
http://france.list.galaxyproject.org
A très bientôt sur la liste Galaxy France,
Les administrateurs:
Alban Lermine, Olivier Inizan, Rémi Marenco, Dave Clements
://wiki.g2.bx.psu.edu/GalaxyUpdates
*, please let me know.
Thanks,
Dave Clements
--
http://galaxyproject.org/wiki/GCC2012http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://galaxyproject.org/wiki/
___
The Galaxy User
have anything you would like to see in the December *Galaxy
Updatehttp://wiki.g2.bx.psu.edu/GalaxyUpdates
*, please let us know.
Dave Clements and the Galaxy Team http://wiki.g2.bx.psu.edu/GalaxyTeam
--
http://galaxyproject.org/wiki/GCC2012http://galaxyproject.org/
http://getgalaxy.org/
http
/GalaxyUpdates/2012_12#Other_News
If you have anything you would like to see in the January *Galaxy
Updatehttp://wiki.galaxyproject.org/GalaxyUpdates
*, please let us know.
Thanks,
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/wiki/GCC2012http
Hi Lew,
CC'ing the galaxy-user list because I am assuming that your question is
about the free public server (Main) @ usegalaxy.org / main.g2.bx.psu.edu.
If you have any future questions about Main, please post them to
Galaxy-User so that others can see the question and respond.
If I am reading
Nicholas,
General project statistics are published at
http://wiki.galaxyproject.org/Galaxy%20Project/Statistics. We update most
of those numbers every 6 months and they were last updated in July.
I'll see what I can find about the number of case.edu users. Look for a
private email later today.
,
Dave Clements and the Galaxy Team
--
http://galaxyproject.org/wiki/GCC2012http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org/
___
The Galaxy User list should be used for the discussion of
Galaxy
Hello all,
If you are interested, this was discussed on the Galaxy-Dev list:
http://dev.list.galaxyproject.org/galaxy-using-EC2-spot-pricing-td4657877.html
Dave C
On Tue, Jan 15, 2013 at 5:35 PM, Andrew Norman anorma...@gmail.com wrote:
Hi
I'm wondering if anyone has had experience running
Hi Daniel,
Yes, there was a problem yesterday with importing data on the public
server. The problem was identified and fixed late yesterday.
Thanks for reporting this, and please let us know if this problem reoccurs.
Thanks,
Dave C
On Thu, Jan 17, 2013 at 6:09 AM, Daniel Sher
#Other_News
If you have anything you would like to see in the March *Galaxy
Updatehttp://wiki.galaxyproject.org/GalaxyUpdates
*, please let us know.
Thanks,
Dave Clements http://wiki.galaxyproject.org/DaveClements and the Galaxy
Team http://wiki.galaxyproject.org/GalaxyTeam
--
http
Hello all,
The March 2013 Galaxy Update is now
availablehttp://wiki.galaxyproject.org/GalaxyUpdates/2013_03.
See http://wiki.galaxyproject.org/GalaxyUpdates/2013_03. *Highlights
include:*
-
*GCC2013 http://wiki.galaxyproject.org/GalaxyUpdates/2013_03#GCC2013 early
registration
, 2013 at 7:40 PM, Dave Clements
cleme...@galaxyproject.orgwrote:
Dear Galaxy Community,
We are pleased to announce that early
registrationhttp://wiki.galaxyproject.org/Events/GCC2013/Register
and paper and poster abstract
submissionhttp://wiki.galaxyproject.org/Events/GCC2013/Abstracts
.
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/GCC2013
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org/
___
The Galaxy User list should
the
article processing fees for these articles. See
the announcement
http://wiki.galaxyproject.org/News/GigaScienceGalaxyCFPfor details.
Thanks,
Dave C
On Mon, Feb 25, 2013 at 3:40 AM, Dave Clements
cleme...@galaxyproject.orgwrote:
Dear Galaxy Community,
We are pleased to announce that early
Hello all,
The 2013 GMOD Summer School is now accepting applications. Galaxy will
again be included in the topics covered.
And Amelia says:
Applications are competitive, so we encourage you to apply well before the
deadline, June 10th.
So, if you are interested, act soon.
Dave C
Hi David,
Using Galaxy to teach undergraduates is a long term interest of mine.
Which, unfortunately, does not mean I have yet put a lot of thought into
it. However, lack of thought hasn't stopped me yet.
First, this topic was discussed in a breakout at last year's GCC:
is another issue, but this is not the topic of this email...
I'll have a better look at how I could use published histories and
workflows...
Thanks,
DJ
2013/4/24 Dave Clements cleme...@galaxyproject.org
Hi David,
Using Galaxy to teach undergraduates is a long term interest of mine
/2013_05#Other_News
If you have anything you would like to see in the June *Galaxy
Updatehttp://wiki.galaxyproject.org/GalaxyUpdates
*, please let us know.
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/GCC2013
http://galaxyproject.org/
http
Hello all,
The terms of use https://main.g2.bx.psu.edu/static/terms.html for the
Galaxy Project's free Galaxy server, http://usegalaxy.org (a.k.a.
Mainhttp://wiki.galaxyproject.org/Main)
specify
Your access to the Service is provided under the condition that you abide
by any published quotas on
team feedback for duplicate accounts at
usegalaxy.orgpending.
bit.ly/17wIicD #usegalaxy http://twitter.com/search?q=%23usegalaxy
On Wed, May 15, 2013 at 4:39 PM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hello all,
The terms of use https://main.g2.bx.psu.edu/static/terms.html
.
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/GCC2013
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org/
___
The Galaxy User list should
Hi Sarah,
We'd be happy to put this on the Galaxy Event Horizon page on the wiki.
Since the event is over, we would list it in the past events section.
Is there a web page for the workshop or slides that we can link to?
And, for future reference, wiki update requests can be sent directly
to
Hi Ramon,
The Galaxy Project does not track local installs directly. We don't even
keep track of the number of times it is downloaded.
However, you can get an approximate feel for how widely used it is in a
couple of other ways:
- Galaxy-Dev mailing list traffic and membership. Most
Hello all,
This is a reminder that
registrationhttp://wiki.galaxyproject.org/Events/GCC2013/Registerfor
the 2013
Galaxy Community Conference
(GCC2013http://wiki.galaxyproject.org/Events/GCC2013)
closes June 14*, just ten days from today. *Registering
Hi Thanh,
This is a question about Cuffdiff, rather than about Galaxy directly. Try
posting the question to one of these forums:
https://groups.google.com/forum/#!forum/tuxedo-tools-users
http://seqanswers.com/forums/forumdisplay.php?f=18 - Bioinformatics forum
://wiki.galaxyproject.org/GalaxyUpdates/2013_08#Other_News
If you have anything you would like to see in the next *Galaxy
Updatehttp://wiki.galaxyproject.org/GalaxyUpdates
*, please let us know.
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/GCC2013
http
Hello all,
The Galaxy Project is asking for your help on how we should focus our
training efforts for the coming year. If you are interested in Galaxy
Training, please take a few minutes to let us know what you would like to
see offered, and where you would like training to be held:
Dear Ido,
The load on the Galaxy project public server (main, aka usegalaxy.org) is
often heavy and it's unpredictable when that will happen. As such teaching
using main is not, um, recommended.
About 18 months ago, the Galaxy project switched from using main for
workshops to using cloud-based
Hello all,
The 2014 Galaxy Community Conference
(GCC2014)http://wiki.galaxyproject.org/Events/GCC2014 has
been scheduled for June 30 through July 2, at the Homewood
Campushttp://webapps.jhu.edu/jhuniverse/information_about_hopkins/campuses/homewood_campus/
of Johns Hopkins University
anything you would like to see in the next *Galaxy Update
http://wiki.galaxyproject.org/GalaxyUpdates*, please let us know.
Thanks for an excellent year,
Dave Clements and the Galaxy Team http://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org
Hello all,
Training Day topics are nominated by you http://bit.ly/gcc2014tdnom, the
Galaxy Community. Please take a minute to nominate a topic. Any topic of
interest to the Galaxy Community can be nominated and you are encouraged to
nominate more than one topic. If you are looking for ideas, see
http://bit.ly/gcc2014tdnom before the end of this
Friday.*
Thanks,
Dave C, on behalf of the GCC2014 Organizing Committee
On Mon, Dec 2, 2013 at 10:32 AM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hello all,
Training Day topics are nominated by you http://bit.ly/gcc2014tdnom,
the Galaxy
If you have anything you would like to see in the next *Galaxy Update
https://wiki.galaxyproject.org/GalaxyUpdates*, please let us know.
Best wishes to you and yours for a happy and spectacular 2014,
Dave Clements and the Galaxy Teamhttps://wiki.galaxyproject.org/GalaxyTeam
--
http
Hello all,
What topics should be offered at the GCC2014 Training
Dayhttps://wiki.galaxyproject.org/Events/GCC2014/TrainingDay
?
Topics https://wiki.galaxyproject.org/Events/GCC2014/TrainingDay for
the GCC2014
Training Day https://wiki.galaxyproject.org/Events/GCC2014/TrainingDay are
selected by
Hello all,
*We are pleased to announce the 1st Galaxy Australasia Workshop 2014 (GAW
2014) https://wiki.galaxyproject.org/Events/GAW2014 will be held in
Melbourne, Australia on 24 and 25th March 2014.*
The Galaxy Australasia
Workshophttps://wiki.galaxyproject.org/Events/GAW2014 is
a great
to see in the next *Galaxy Update
https://wiki.galaxyproject.org/GalaxyUpdates*, please let us know.
Dave Clements and the Galaxy Teamhttps://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org
Hi Douglas,
I encourage you and anyone else that has encountered this error to up-vote
this issue in the Galaxy Trello board:
https://trello.com/c/QZlmb0Yf
That will help us prioritize work. Thanks for reporting this.
Dave C
On Thu, Jan 30, 2014 at 10:24 AM, Douglas Cavener d...@psu.edu
Hello all,
*We are pleased to announce that Early Registration
https://wiki.galaxyproject.org/Events/GCC2014/Register and Talk and
Poster Abstract Submission
https://wiki.galaxyproject.org/Events/GCC2014/Abstracts are now open for
the 2014 Galaxy Community Conference (GCC2014)
#ToolShed_Contributions
-
Other Newshttps://wiki.galaxyproject.org/GalaxyUpdates/2014_03#Other_News
If you have anything you would like to see in the next *Galaxy Update
https://wiki.galaxyproject.org/GalaxyUpdates*, please let us know.
Thanks,
Dave Clements and the Galaxy Teamhttps
Hi Bogdan,
You have been unsubscribed.
For future reference of others who want to unsubscribe:
1. Go to http://lists.bx.psu.edu/listinfo/galaxy-user and scroll to the
bottom of the page.
2. Enter the email address that you receive list email at (check the full
header of the email) and click the
Hello all,
Access to all TACC resources and services, including
UseGalaxy.orghttps://usegalaxy.org/,
will be unavailable between 9 a.m. - 5 p.m. (US Central Time) on Saturday,
March 22. TACC staff will be performing an upgrade to the networking
infrastructure.
During this outage, users are
On Fri, Feb 14, 2014 at 1:33 PM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hello all,
*We are pleased to announce that Early Registration
https://wiki.galaxyproject.org/Events/GCC2014/Register and Talk and
Poster Abstract Submission
https://wiki.galaxyproject.org/Events/GCC2014/Abstracts
let us know.
Dave Clements and the Galaxy Teamhttps://wiki.galaxyproject.org/GalaxyTeam
--
http://galaxyproject.org/GCC2014
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
https://wiki.galaxyproject.org/
___
The Galaxy
accepted talks will start showing up on the website this week.
Thanks, and hope to see you in Baltimore,
Dave C
On Fri, Feb 14, 2014 at 1:33 PM, Dave Clements
cleme...@galaxyproject.orgwrote:
Hello all,
*We are pleased to announce that Early Registration
https://wiki.galaxyproject.org/Events
Hello all,
After 8+ years and more than 8100 posts, the Galaxy-User mailing list has
been retired. But, don't worry, you can still get Galaxy user support at
Galaxy Biostar (https://biostar.usegalaxy.org/), an online user support
forum that has replaced this list.
Past postings to this list are
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