[galaxy-dev] Galaxy Administrator Training, Jan 28 - Feb 1, Penn State University

[Dave Clements]

Hello all,

We are pleased to announce that* the 2019 Galaxy Admin Training
 will be offered
January 28 through February 1 at Penn State University* (where the Galaxy
Project got started over ten years ago). The workshop offers a 2 day
introductory session
 followed
by a 3 day advanced topics session
.
Participants can register for one or both sessions.

This workshop will cover what you need to know to set up your own
high-performance and multi-user production Galaxy instance. Sessions will
be *intensive and hands-on*, and taught by experienced instructors from the
Galaxy Community. Participants will learn how to install, configure,
customize, and extend their own Galaxy servers. Topics include tool
configuration, authentication and user management, using heterogeneous
storage and compute services, and many other topics that will enable you to
get your own Galaxy server up and running, performing well, and used by
your community.

Registration
 is now
open and starts at $40 / day for participants from non-profits and
academia. Early registration ends October 31. However, the 2016 and 2018
admin training were both full, so you are strongly encouraged to *register
now*.

*The workshop does have prerequisites
.
Please read them before you register.*
Cheers,
Dave C.


*About Galaxy *
Galaxy is an open web based platform for biomedical data integration and
analysis. It is deployed at large and small organizations around the world
and used in a broad range of biomedical research domains, and across the
tree of life.
-- 
https://galaxyproject.org/
https://usegalaxy.org/
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Re: [galaxy-dev] Using Singularity images to resolve dependences in Galaxy 18.05

[Peter van Heusden]

Thanks Björn!

So it is a job_conf thing rather than a dependency manager config thing?

>From the job_conf.xml example I am not clear how it expects to find the
container images? How is the search path configured, what naming scheme is
used for containers? And does it "pull" containers automatically (like the
conda dependency manager does) or should I pre-populate the system with
container images?

Thanks,
Peter

On Wed, 19 Sep 2018 at 10:15 Björn Grüning 
wrote:

> Hi Peter,
>
> yes this is working :)
> Usegalaxy.eu is using it for a few tools.
>
> Documentation is here ;)
>
> https://github.com/galaxyproject/galaxy/blob/dev/config/job_conf.xml.sample_advanced#L484
>
> Also the Docker compose image is can also use Singularity if you want to
> reverse engineer it :)
>
> Ciao,
> Bjoern
>
> Am 19.09.2018 um 10:12 schrieb Peter van Heusden:
> > Hi there
> >
> > Is it possible to use Singularity images to resolve dependencies in
> > Galaxy 18.05? If so is there documentation somewhere?
> >
> > I have a Galaxy server where for at least some of the dependencies conda
> > will not be a good option so I would like to be able to use singularity
> > if at all possible.
> >
> > Thanks!
> > Peter
> >
> >
> > ___
> > Please keep all replies on the list by using "reply all"
> > in your mail client.  To manage your subscriptions to this
> > and other Galaxy lists, please use the interface at:
> >https://lists.galaxyproject.org/
> >
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> >http://galaxyproject.org/search/
> >
>
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Re: [galaxy-dev] Using Singularity images to resolve dependences in Galaxy 18.05

[Björn Grüning]

Hi Peter,

yes this is working :)
Usegalaxy.eu is using it for a few tools.

Documentation is here ;) 
https://github.com/galaxyproject/galaxy/blob/dev/config/job_conf.xml.sample_advanced#L484


Also the Docker compose image is can also use Singularity if you want to 
reverse engineer it :)


Ciao,
Bjoern

Am 19.09.2018 um 10:12 schrieb Peter van Heusden:

Hi there

Is it possible to use Singularity images to resolve dependencies in 
Galaxy 18.05? If so is there documentation somewhere?


I have a Galaxy server where for at least some of the dependencies conda 
will not be a good option so I would like to be able to use singularity 
if at all possible.


Thanks!
Peter


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   http://galaxyproject.org/search/


___
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 https://lists.galaxyproject.org/

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 http://galaxyproject.org/search/

[galaxy-dev] Using Singularity images to resolve dependences in Galaxy 18.05

[Peter van Heusden]

Hi there

Is it possible to use Singularity images to resolve dependencies in Galaxy
18.05? If so is there documentation somewhere?

I have a Galaxy server where for at least some of the dependencies conda
will not be a good option so I would like to be able to use singularity if
at all possible.

Thanks!
Peter
___
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in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/