[Bioc-devel] Do we have an unpacked archive for BioC, so that we can URL link to individual files ?

[Neumann, Steffen]

Hi,

thanks for the answer, unfortunately 
not exactly what I meant. To be more precise:

I want to point Galaxy to download (test) MS data files 
from either the faahKO package, or msdata or mtbls2 in BioC.

For that I need an ftp/http/https link to the files,
and I was able to use 

https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/msdata/inst/cdf/ko15.CDF

(which still works, but is probably outdated)
So is there anything equivalent in the new git setup ?

Yours,
Steffen


On Fri, 2017-11-17 at 04:31 -0500, Martin Morgan wrote:
> On 11/17/2017 04:08 AM, Neumann, Steffen wrote:
> > Hi,
> > 
> > I would like to have a URL to individual files
> > we have in BioC packages. This is useful
> > e.g. if I need test data from, say, the msdata package,
> > in another context.
> > 
> > In the SVN days, I was able to point directly
> > into the SVN repo with readonly:readonly access.
> > We also had the (now deprecated) way to link to:
> > https://raw.githubusercontent.com/Bioconductor-mirror/xcms/master/D
> > ESCRIPTION
> > 
> > -> Is there anything comparable today ?
> 
> I think the git archive command might do the trick, but it requires
> ssh 
> (i.e., write) access to the repository
> 
> git archive --remote=git at git.bioconductor.org:packages/xcms \
>       master DESCRIPTION | tar -xf -
> 
> 
> > 
> > It could be as simple as a directory tree
> > of a working copies of all https://git.bioconductor.org/
> > served by the apache (or whatever) web server,
> > or (a bit cooler) a gitweb or similar http interface.
> > 
> > Wouldn't that be a fantastic christmas present
> > for us users and developers :-) ?
> > 
> > Yours,
> > Steffen
> > 
> 
> 
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IPB Halle                    AG Massenspektrometrie & Bioinformatik
Dr. Steffen Neumann          http://www.IPB-Halle.DE
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