[Fedora-r-devel-list] Presentation
Tom "spot" Callaway
tcallawa at redhat.com
Wed May 23 21:13:54 UTC 2007
On Wed, 2007-05-23 at 15:23 -0500, Tom "spot" Callaway wrote:
> On Wed, 2007-05-23 at 22:22 +0200, pingou wrote:
> > Hello,
> >
> > My name is Pierre-Yves Chibon, I am one of the french ambassadors.
> > I have just discovered this mailing list but I am glad to see that I am
> > not the only one using R under Fedora :-) (not lot of french do so)
> >
> > To shortly introduce myself, I am student doing a master in
> > bioinformatics. And i will have to program under R so I have already
> > done the RPMs needed for the software on which I will have to work.
> > These RPMs are Biobase, Multtest, and Maanova (but this one was to try),
> > they are all from the bioconductor website.
> > Biobase and Multtest are waiting for reviews on bugzilla. And I am
> > waiting for their review to make other RPMs :-)
> >
> > I hope to be helpful in what I can do...
>
> Post the links to the bugzilla tickets? :)
OK, so when I looked at R-Biobase:
https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=240500
I noted that it was missing R CMD check in a %check section.
Of course, now I remember why. There is a circular "dependency" loop
between Biobase, tkWidgets and widgetTools when running R CMD check.
Biobase says it needs tkWidgets, tkWidgets says it needs Biobase.
Neither is really true, but I'd rather have Biobase running the check
than tkWidgets, so thats how I resolved the loop.
Occasionally, it is necessary to resolve this "check dependency loop" by
not running check on a package. In those cases, please DOCUMENT in the
spec file that the check command is commented out, and explain the loop
you're breaking.
I whipped up the necessary missing packages here:
DynDoc:
http://www.auroralinux.org/people/spot/review/R-DynDoc-1.14.0-1.fc7.src.rpm
http://www.auroralinux.org/people/spot/review/R-DynDoc.spec
widgetTools:
http://www.auroralinux.org/people/spot/review/R-widgetTools-1.12.0-1.fc7.src.rpm
http://www.auroralinux.org/people/spot/review/R-widgetTools.spec
tkWidgets:
http://www.auroralinux.org/people/spot/review/R-tkWidgets-1.14.0-1.fc7.src.rpm
http://www.auroralinux.org/people/spot/review/R-tkWidgets.spec
Pingou, if you'd like to own these packages in Fedora, that is fine by
me. If not, I'll put them up for review.
~spot
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