Re: Refs to Conda - giving it a try after meeting Björn at a conference

[Steffen Möller <steffen_moeller@gmx.de>]

Hi Matúš,

On 24.09.19 09:58, Matus Kalas wrote:
> Hey all, it's super cool to see this happening!!
Yip!
> I'm also very strongly supporting the idea of bioconda+debian~>biology
> training material(s), including the Jugend vorsicht! (Youth beware? :D)
I kind of guess that you know, but https://www.jugend-forscht.de/ are
doing good stuff. Admittedly, I have no idea about orthologous
activities in other countries, but there certainly are.
> I'll be in the BioHackathon in Greater Paris as well.

Almost like a little Debian sprint :o)

We have scheduled our next for Berlin. Should we have an interim one to
speed things up?

> For the ELIXIR folks: Do you think we should apply for (an)
> Implementation Study|ies around these integrations? Would that make
> sense, and would it have a chance to get funding? In addition to the
> Tools Platform, the Training Platform might be interested. (there
> could be positive implications also for training, Galaxy,
> BioContainers(?), ...)

What came to mind is an auto-translation of the conda environment.yml to
different Linux distributions with the help of bio.tools.

Best,

Steffen

> On 2019-09-24 01:03, Steffen Möller wrote:
> > On 22.09.19 17:04, Andreas Tille wrote:
> > > Hi Steffen,
> > >
> > > On Sun, Sep 22, 2019 at 04:36:47PM +0200, Steffen Möller wrote:
> > > > > Thanks for this effort.  I've seen your commits.
> > > > Thank you for preparing the udd.
> > > >
> > > > The conda:channel syntax was meant to prepare for the many flavours of
> > > > conda that are out there.
> > > I've seen this but its useless (as I explained in debian-blends).
> > > Please do *not* only change the template since it has no effect at all.
> > Somehow a second commit got stuck while on the train.
> > > > The root is with conda-force. And this is also
> > > > where the Debian-Science-maintained package datamash is:
> > > > https://anaconda.org/conda-forge/datamash .
> > > Lets see once the first datamash registry will arrive.  These should be
> > > documented in https://wiki.debian.org/UpstreamMetadata as a valid
> > > Registry.  Once it is documented there it will be implemented in the
> > > code.  Everything else is error prone and does not bring us forward.
> > Good idea, will do that.
> >
> > My preferred way to perform these additions would be by assigning a list
> > of Debian package names and conda recipe/package names. Then let some
> > bot perform the editing. The idea to  check out everything locally while
> > working on my laptop is nothing that I am prepared to do. But you are
> > right. I should stop doing this all via the salsa web interface.
> >
> > Best,
> > Steffen