galaxyp build for docker

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galaxyp build for docker

Evan Bollig PhD
Hey Bjoern,

I'm playing with your docker recipes
(https://github.com/bgruening/docker-recipes) today and I've been
waiting for the galaxyp image build to complete for about 3 hours. For
the majority of that time it has been stuck on

RUN install-repository "--url http://testtoolshed.g2.bx.psu.edu/ -o
bgruening --name package_openms_latest"

What is the typical build time you experience? Any thoughts on how
this could have gone wrong?

Cheers,
-Evan Bollig
Research Associate | Application Developer | User Support Consultant
Minnesota Supercomputing Institute
599 Walter Library
612 624 1447
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Re: galaxyp build for docker

Björn Grüning-3
Hi Evan,

Am 19.01.2015 um 17:43 schrieb Evan Bollig PhD:
> Hey Bjoern,
>
> I'm playing with your docker recipes
> (https://github.com/bgruening/docker-recipes) today and I've been
> waiting for the galaxyp image build to complete for about 3 hours. For
> the majority of that time it has been stuck on
>
> RUN install-repository "--url http://testtoolshed.g2.bx.psu.edu/ -o
> bgruening --name package_openms_latest"

The Tool Shed was down today, maybe this was a reason?

> What is the typical build time you experience? Any thoughts on how
> this could have gone wrong?

This is a good question. OpenMS is a beast. It can take several hours.
On one of my computers I needed to add:

threadpool_kill_thread_limit = 31600
threadpool_hung_thread_limit = 20000

to the galaxy.ini to not get a timeout during installations. Maybe you
can add this as well?

Cheers,
Bjoern

> Cheers,
> -Evan Bollig
> Research Associate | Application Developer | User Support Consultant
> Minnesota Supercomputing Institute
> 599 Walter Library
> 612 624 1447
> [hidden email]
> [hidden email]
> ___________________________________________________________
> 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/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/mailinglists/
>
___________________________________________________________
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/

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