[Bio-linux-dev] bio-linux-galaxy or galaxy-server

[Tim Booth]

Oh, and as this is the developer list, I should mention the source
packages and latest development commits are all available:

https://launchpad.net/~nebc/+archive/galaxy

Right now we've pushed all the binary packages to the main package
server in advance of announcing them, so you don't get anything newer by
using the development PPA.  

We're also hoping to get our packages synced into the debian-med SVN but
this isn't feasible until we ditch Ubuntu 10.04 as there are now so many
incompatibilities between the legacy and contemporary source packages.

Cheers,

TIM

On Mon, 2012-07-09 at 16:02 +0100, Tim Booth wrote:
> Hi Will,
> 
> Sorry, the redundant bio-linux-* packages have now been cleaned off the
> server.  All the packages (aside from the OpenOffice one which has
> nothing to do with this) are ours.  If you want to try Galaxy with all
> the default package dependencies, install "galaxy-server-all".
> 
> These have not yet been officially announced because, while complete,
> there is still a bit more testing to do before I'm happy and we can
> co-ordinate an announcement with our collaborators in Manchester.
> 
> Note that you'll get a warning about two missing packages - we can't put
> these on the main server due to licensing restrictions.
> 
> And yes, I'd be interested in the startup script.  I need to review the
> latest packaging guidelines but I think we'll need separate startup
> scripts for Ubuntu and Debian if this is to work on both.  There's some
> way to go before the Galaxy packages (at least the core) could make it
> to Debian-Med, though, as I've employed some very nasty hacks to get
> them building!
> 
> Cheers,
> 
> TIM
> 
> > $ aptitude search galaxy
> > p   bio-linux-galaxy-all  - A web-based analysis environment with third party dependencies                                
> > p   bio-linux-galaxy-core - A web-based analysis environment                                                              
> > p   bio-linux-galaxy-dependencies - Third party dependencies for Galaxy (a web-based analysis tool)                               
> > p   galaxy-server - A web-based analysis environment                                                              
> > p   galaxy-server-all - Galaxy server with all recommended tools                                                      
> > p   galaxy-server-test - Test and demo data for Galaxy server                                                          
> > p   openoffice.org-style-galaxy - office productivity suite -- Galaxy (Default) symbol style        
> > 
> > So galaxy seems to be packaged twice, once by bio-linux, and once
> > elsewhere. Tim and Soon Gweon are the maintainers in bot cases. So -
> > should I be using bio-linux-galaxy or galaxy-server?
> > 
> > Tim - I also have a debian service-compatible init.d startup script
> > for galaxy if you're interested. Similar to the
> > current /etc/init/galaxy.conf, but with greater functionality.
> > 
> > Best,
> > 
> > Will
> > 
> > ---
> > William Spooner           http://eaglegenomics.com
> > M:07779-663045 E:william.spooner at eaglegenomics.com 
> > 
> > _______________________________________________
> > Bio-Linux-dev mailing list
> > Bio-Linux-dev at nebclists.nerc.ac.uk
> > http://nebclists.nerc.ac.uk/mailman/listinfo/bio-linux-dev
> 
> -- 
> Tim Booth <tbooth at ceh.ac.uk>
> NERC Environmental Bioinformatics Centre 
> 
> Centre for Ecology and Hydrology
> Maclean Bldg, Benson Lane
> Crowmarsh Gifford
> Wallingford, England
> OX10 8BB 
> 
> http://nebc.nerc.ac.uk
> +44 1491 69 2705
> 

-- 
Tim Booth <tbooth at ceh.ac.uk>
NERC Environmental Bioinformatics Centre 

Centre for Ecology and Hydrology
Maclean Bldg, Benson Lane
Crowmarsh Gifford
Wallingford, England
OX10 8BB 

http://nebc.nerc.ac.uk
+44 1491 69 2705

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