Re: [Rd] R-2.0.0 Install problem for pkg bundle w inter-dependent namespaces

From: Prof Brian Ripley <ripley_at_stats.ox.ac.uk>
Date: Tue 21 Sep 2004 - 02:30:46 EST


On Mon, 20 Sep 2004, Martin Maechler wrote:

> >>>>> "Greg" == Warnes, Gregory R <gregory_r_warnes@groton.pfizer.com>
> >>>>> on Fri, 17 Sep 2004 14:18:29 -0400 writes:
>
> Greg> I have a revised version of the gregmisc package,
> Greg> which I've converted into a package bundle each of
> Greg> which has a namespace: gplots, gmodels, gdata,
> Greg> gtoools. Of course, there are interdependencies among
> Greg> these namespaces:
>
> Greg> gsun374: /tmp [11]> cd gregmisc/
> Greg> gsun374: gregmisc [12]> grep import */NAMESPACE
> Greg> gdata/NAMESPACE:importFrom(gtools, odd, invalid, mixedsort)
> Greg> gmodels/NAMESPACE:importFrom(MASS, ginv)
> Greg> gplots/NAMESPACE:importFrom(gtools, invalid)
> Greg> gplots/NAMESPACE:importFrom(gtools, odd)
> Greg> gplots/NAMESPACE:importFrom(gdata, nobs)
>
> since nobody else has answered yet (and a considerable portion
> of R-core is traveling this week) :
>
> If I understand correctly, your basic package 'gtools' and the
> dependency you need is
>
> gplots --> gdata --> gtools
> \----->----/
>
> Have you made sure to use the proper 'Depends: ' entries in
> the DESCRIPTION(.in) files of your bundle packages ?
>
> This works fine if the packages are *not* in a bundle, right?
>
> Greg> Under R-1.9.1, this package bundle passes R CMD check
> Greg> and installs happily. However, under yesterday's
> Greg> R-2.0.0-alpha, the package fails to install (& hence
> Greg> pass CMD CHECK) with the error
>
> Greg> ** preparing package for lazy loading
> Greg> Error in loadNamespace(i[[1]], c(lib.loc, .libPaths()), keep.source)
> Greg> :
> Greg> There is no package called 'gdata'
> Greg> Execution halted
> Greg> ERROR: lazy loading failed for package 'gplots'
>
> Greg> because the gdata package is the last in the bundle to
> Greg> be installed, so it is not yet present.
>
> Greg> So, what is the proper way to handle this? Is there
> Greg> some way to manually specify the package install order?
>
> Well, isn't the order in the 'Contains:' field of the bundle
> DESCRIPTION file used?

I believe so (but am in Slovenia). We have ways to resolve dependencies for non-bundles (new in 2.0.0), but for bundles we assume the order given by the author(s) is the correct one.

-- 
Brian D. Ripley,                  ripley@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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Received on Tue Sep 21 02:37:08 2004

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