[Phylobase-devl] Fwd: Re: CRAN packages phylobase and adephylo

[Brian O'Meara]

Inspired by this exchange, I just noticed that one of my packages, RBrownie
was also pulled from CRAN. Nice to know.

Brian

_______________________________________
Brian O'Meara
Assistant Professor
Dept. of Ecology & Evolutionary Biology
U. of Tennessee, Knoxville
http://www.brianomeara.info

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On Mon, Nov 7, 2011 at 1:18 PM, Jombart, Thibaut
<t.jombart at imperial.ac.uk>wrote:

> Dear all,
>
> sorry for not replying sooner, I am just reading these posts now - need to
> pay more attention to this ML.
>
> The whole situation is very odd. I received only one single automatic
> notification about adephylo not compiling on windows with R beta, to which
> I replied the next day. Other than that, I never received any other message
> about the package - not even in my spambox, assuming a spam filter would
> dare to tag Brian Ripley's emails as 'spam'. Anyway, I only discovered this
> morning is that adephylo's been archived, thanks to Ben.
>
> I have submitted a new version this afternoon and adephylo is back on CRAN.
>
> The scary thing is, when I enquired today to BR about what happened, he
> told me that a package maintainer is not contacted when the package is
> archived/removed. His reply was one has to check the checks. I'll add that
> to my checklist.
>
> Cheers
>
> Thibaut.
>
> ________________________________________
> From: phylobase-devl-bounces at r-forge.wu-wien.ac.at [
> phylobase-devl-bounces at r-forge.wu-wien.ac.at] on behalf of Ben Bolker [
> bbolker at gmail.com]
> Sent: 05 November 2011 00:35
> To: phylobase-devl at r-forge.wu-wien.ac.at
> Subject: [Phylobase-devl] Fwd: Re: CRAN packages phylobase and adephylo
>
>  Hey guys,
>
>  Any opinions about this?
>
>  adephylo is not absolutely necessary to phylobase, but it bothers me
> to spend effort removing it when we might be able to fix it instead.
> Perhaps if Thibaut responds (the fix is fairly trivial) and we then
> grovel to the R Gods/BDR ...
>
>  It may be necessary for political reasons to make these changes and
> then revert them if/when we get adephylo fixed.
>
>  We have another issue -- the Solaris build (sigh) is failing, with the
> following error:
>
>  "./ncl/nxsstring.h", line 467: Error: The function "sprintf" must have
> a prototype.
>
>  Fixing this (by remote control) could be pretty challenging -- R-forge
> doesn't have a Solaris build, so it could involve more grovelling to BDR
> for advice (another reason to temporarily do the adephylo fix, unless we
> can get our act together quickly).
>
>  cheers
>    Ben
>
>
>
> -------- Original Message --------
> Subject: Re: CRAN packages phylobase and adephylo
> Date: Sun, 6 Nov 2011 16:50:41 +0000 (GMT)
> From: Prof Brian Ripley <ripley at stats.ox.ac.uk>
> To: Ben Bolker <bbolker at gmail.com>
> CC: CRAN at r-project.org
>
> On Fri, 4 Nov 2011, Ben Bolker wrote:
>
> > On 11-11-04 04:31 AM, Prof Brian Ripley wrote:
> >> Package adephylo has been archived: it was failing on R 2.14.0 and we
> >> have had no response to several messages to the maintainer.
> >>
> >> Package phylobase suggests adephylo, but still passes its checks without
> >> it (and grepping the code suggests that it does not actually use it).
> >> Nevertheless, the documentation needs updating, so can we please have a
> >> revised version of phylobase.
> >>
> >> Brian Ripley
> >>
> >
> >  I think I see the problem with adephylo -- I'm going to try to nag the
> > maintainer (who I know personally) a bit more and see if we can get this
> > resolved from that end.
>
> It's far too late: adephylo has been archived.  His complete failure
> to respond to messages means we may be reluctant to re-admit it.
>
> In any case, phylobase needs an update now.
>
> >
> >  thanks
> >    Ben Bolker
> >
>
> --
> Brian D. Ripley,                  ripley at stats.ox.ac.uk
> Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
> University of Oxford,             Tel:  +44 1865 272861 (self)
> 1 South Parks Road,                     +44 1865 272866 (PA)
> Oxford OX1 3TG, UK                Fax:  +44 1865 272595
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