Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Eric Rasche
Tiago, Some work is already in progress for that. Please see - http://wookoouk.github.io/galaxyFlavorGenerator/ - https://github.com/galaxyFlavorsGenerators/galaxyFlavorGenerator/ I don't believe it handles configuration of the cluster backend, but I'm sure that would be a good addition to

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Tiago Rodrigues Antao
On Tue, 4 Aug 2015 17:26:00 + "Kandalaft, Iyad" wrote: > As a supplement to Oksana's original inquiry, we, at AAFC, couple > Galaxy to SGE and possibly a different grid engine in the future for > job scheduling. The old-fashioned way of doing that is to unify > storage path and UID/GID betw

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Björn Grüning
Thanks! @Brian please add your ideas and use cases so we can figure out a way how to support this :) Thanks, Bjoern Am 05.08.2015 um 16:26 schrieb Oksana Korol: > Created issue #74, with reference to this discussion. > > Cheers, > Oksana > > On Wed, Aug 5, 2015 at 9:52 AM, Björn Grüning > wro

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Oksana Korol
Created issue #74, with reference to this discussion. Cheers, Oksana On Wed, Aug 5, 2015 at 9:52 AM, Björn Grüning wrote: > Hi Brian, Oksana, > > let's move this discussion to github and try to get something done for > the next+1 release. > > 15.07/15.08 or what ever it will be is really close

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Björn Grüning
Hi Brian, Oksana, let's move this discussion to github and try to get something done for the next+1 release. 15.07/15.08 or what ever it will be is really close so I would like to not rush here. But as soon as we have release this version. We can try to get something in :dev that addresses these

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Oksana Korol
HI Brian, Thanks for sharing your code. We have just discussed your approach as one possibility of solving our problem, but delayed it as it involved too much hacking :). Now that you've done the hacking, we may revisit it. We were also discussing a possibility of creating access groups with Galax

Re: [galaxy-dev] Externalizing Galaxy config in docker-galaxy-stable

2015-08-05 Thread Björn Grüning
Hi Brian, thanks for you mail! Very appreciated, please see my comments inline. >> We only have one cluster, so we will have both test and production >> environments running on it. I understand that at a minimum we'd need >> different Galaxy home dir and UID/GID. > > > For our local deployment