[pkg-bioc] A short note

[Steffen Moeller]

Hello,

great you were successful in getting it all in place. Please amend the 
documentation whereever appropriate ... .

On Wednesday 16 May 2007 12:07:13 Frederic Lehobey wrote:
> On Tue, May 15, 2007 at 08:11:48PM +0200, Steffen Moeller wrote:
> > Just as a sidenote - we have since yesterday the awareness of the
> > cran2deb.pl of packages that are already available at our semi-legal
> > (read "for now tolerated") alioth repository. This hence means that we
> > should attempt to cronjob that beast - both on the packaging and the
> > repository site.
>
> I will come back to this later (I am offline until the end of the
> week), but thanks to your impressive work I have setup a cron job for
> a repository of my own (on a server I am renting).
>
> You can find its (only partial) results here:
> http://r.proxience.com/cran/
> http://r.proxience.com/omegahat/
> http://r.proxience.com/bioc-1.9/

Hm. What should I say .. If you continue renting that and if you have the 
space available and the unpredictable bandwith is affordable, I personally 
would not mind if you become the official host. 

> I have not yet tried to upload to the common repository. I want first
> to check everything is in order in my own local settings and that I
> have the right to upload.
I would prefer that you utilise the addition of the latest version to decide 
if a package is newer than what is available in the repository. If you could 
make sure that your umask is 002 rather than the default 022, I added that to 
the .profile, then everything is just fine with you uploading it all. Give 
r_pkg_upload.sh a try.

All the packages at the moment are not signed and I do not see our DD Dirk to 
sign packages that he has not built himself. If someone of yours has an idea 
how we integrate the signing of the packages without having to enter the 
passphrase every time then this would be helpful.

> As a side note, I have sent the following annoncement to
> debian-science with little feedback so far:
> http://lists.debian.org/debian-science/2007/04/msg00041.html
>
> We plan to setup a special track for 'debian-science' related matters,
> but Andreas Tille is the only speaker confirmed so far. If any of you
> would be interested in talking about R automatic packaging...
>
> Some of the talks are already published:
> http://www.rmll.info/rubrique8.html?lang=en

We have a presentation on the NETTAB conference on it....but with a look at 
the grid talk - that has been presented before, too :-) David, how about you?

If you could find a sponsor for his travel, I am not totally unconfident that 
Frank Thomas of the BOINC packages could give an intruiging talk....at the 
end of the lecture time though he might be packed with exams. He might have a 
substitute, though, hoping that he does not point to me.

The EU project to which I am contributing, www.knowarc.eu, is providing Debian 
packages. The NorduGrid, where the project's roots are, has fewer CPUs than 
LCG (1/15th) but the technology is comparatively easy to understand and set 
up. We could give a presentation of that, I need to check how much time we 
have in spare for that, it will cost us a week, I presume, which is rather 
costly. If you promise to join our grid, though ... if may be a good 
investment, then :-)

> Thanks for your work,
Just go ahead and become a part of it, actually, with testing and improving 
documentation you have become a part of it.

Many greetings

Steffen


-- 

Dr. Steffen Möller
University of Lübeck
Institute for Neuro- and Bioinformatics
Ratzeburger Allee 160
23538 Lübeck
Germany
T: +49 451 500 5504
F: +49 451 500 5502
moeller at inb.uni-luebeck.de
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