Re: Galaxy project producing their own Debian packages

De: "Michael Crusoe" <michael.crusoe@gmail.com>
À: "Olivier Sallou" <olivier.sallou@irisa.fr>
Cc: "Debian Med Project List" <debian-med@lists.debian.org>, "Nate Coraor" <nate@bx.psu.edu>
Envoyé: Lundi 27 Juin 2016 21:04:21
Objet: Re: Galaxy project producing their own Debian packages

Python packages that need packaging:

bx-python
wchartype
dictobj
bioblend
requests-toolbelt
pulsar-galaxy-lib
sqlalchemy-migrate
svgwrite

you mean all other Galaxy dependencies are already available as packages and only those ones are missing in Debian ?

an other point is Galaxy uses specific versions of packages (which is quite usual), but may not work with latest releases of those. Would need testing.

We would need in Debian to deactivate Galaxy startup in virtualenv as well as skip any auto install.

Olivier

This should a complete list, Nate promises that there are no hidden sub dependencies.

They also use a custom fork of pysam

On Mon, Jun 27, 2016 at 2:34 PM, Michael Crusoe <michael.crusoe@gmail.com> wrote:
Hoopla,

I'm at the Galaxy Community Conference sitting next to Nate Coraor.

Nate is enthusiastic about Galaxy becoming properly packaged for Debian. He is well aware of how hacky his current package is :-)

On Thu, Jun 16, 2016 at 11:07 AM, Olivier Sallou <olivier.sallou@irisa.fr> wrote:

On 06/16/2016 08:43 AM, Michael Crusoe wrote:
>
> Vezi Tweetul lui @natefoo:
> https://twitter.com/natefoo/status/743306923026440194
>
> https://depot.galaxyproject.org/nate/dpkg/
>
nice, but easy for them. Galaxy installs many things at run time from
remote locations (pypi and others). So not easy to fit in Debian as all
dependencies not to be Debian packages.

Olivier

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Michael R. Crusoe
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--
Michael R. Crusoe
Community Engineer & Co-founder
Common Workflow Language project
https://impactstory.org/u/0000-0002-2961-9670
michael.crusoe@gmail.com
+32 (0) 2 808 25 58
+1 480 627 9108