[gentoo-soc] Automatically generated overlay of R packages - progress report #7

[gentoo-soc] Automatically generated overlay of R packages - progress report #7

[André Erdmann]

Hi everyone,

== Brief summary of this project ==

The aim of this project is to create scripts that automate the process
of overlay creation/maintenance for R packages from repositories such
as CRAN and Bioconductor.

Longer:
For the ebuild creation of a single package one needs to extract the
package, copy-paste data from its description file to the ebuild and
look up dependencies, which is time-consuming.
Although trivial for a few number of packages, this is practically
impossible to do by hand for repositories like CRAN (> 3500 packages),
especially 'cause it also requires tracking changes (new / updated /
removed packages).
The solution is to automate that process and this is what this project is about.

== Progress of this week ==

First of all, I've written a a main script that is capable of running
sync and/or overlay creation. Running (testing) overlay creation for a
local directory with pre-downloaded packages is possible using
'./main.py --from <the package dir>'. Then, I've did some testing and
fixed issues like invalid tokens in metadata.xml and "`" in the
DESCRIPTION variable of ebuilds.
I've also written how to use the config files.

I'm on schedule.

== Plans for the next week ==

Document what I've written so far

-- 
Regards,
André E.

Re: [gentoo-soc] Automatically generated overlay of R packages - progress report #7

[heroxbd]

Hey André,

André Erdmann <dywi@mailerd.de> writes:

> == Brief summary of this project ==
>
> The aim of this project is to create scripts that automate the process
> of overlay creation/maintenance for R packages from repositories such
> as CRAN and Bioconductor.

Where is the overlay, "layman -L | grep cran" gives nothing. May I try
it out?

Yours,
Benda

Re: [gentoo-soc] Automatically generated overlay of R packages - progress report #7

[André Erdmann]

Hi Benda,

2012/7/10  <heroxbd@gmail.com>:
> Hey André,
>
> André Erdmann <dywi@mailerd.de> writes:
>
>> == Brief summary of this project ==
>>
>> The aim of this project is to create scripts that automate the process
>> of overlay creation/maintenance for R packages from repositories such
>> as CRAN and Bioconductor.
>
> Where is the overlay, "layman -L | grep cran" gives nothing. May I try
> it out?
No, there's no ready-to-use overlay at this time. You can try to
create an overlay, though. To do this, get the source from [1], cd
into the src dir and run "./roverlay.py --stats -R repo_letter_r.list
-O created_overlay". This will download all R packages starting with
r/R from CRAN and try to create an overlay for them in
./created_overlay. Needs about 300M disk space for the packages and
should result in ~90/470 successful ebuild creations (this is due to
missing dependency rules, see config/simple-deprules.conf if you'd
like to add some).

[1] http://git.overlays.gentoo.org/gitweb/?p=proj/R_overlay.git

-- 
Regards,
André E.