[pkg-bioc] Status report on the BioC packages

[Steffen Moeller]

Hi all,

the cran2deb does not perform an automated installation of packages. With a 
regular installation of CRAN and BioC packages though the process works 
fairly smoothly.

The download script was modified to have virtually all the of the 1.9 bioc 
release downloaded now. This comprises the data/annotation and the 
data/experiment directories, summing up to 3.6GB of upstream source.
Some data is rather ... er ... huge. WIth 7 Gig free I was rather surprised to 
experience a disc full error for a single package build, not so much though 
after seeing the GGdata's orig.tar.gz to occupy 235 MB already - SNP data, so 
I presume. I kicked that one out *=|:o/

Of the 1142 libraries in bioc there are now 1062 compiled as Debian packages. 
At the moment I am going manually through the remaining once to decide if 
they should be in at all and if so, what prevented them from building. The 
cran2deb script needs some further automation for the addition of packages 
and a resource-optimising build order. I think I also speak for Dirk when I 
say that prior to getting that fixed, there is no way for us to step into the 
limelight. Another issue is the integration of multiple platforms. Are there 
any PowerPC and Sparc users among us? Are there any visionary thoughts on how 
to present the 3.6 Gigabyte + CRAN Debian packages to anybody? On Alioth?

Many greetings

Steffen
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