On 25/06/2013 14:50, luke-tier...@uiowa.edu wrote:
On Tue, 25 Jun 2013, Duncan Murdoch wrote:
On 13-06-25 7:14 AM, Søren Højsgaard wrote:
Dear Duncan,
Excellent, thanks!
Maybe this is worth a remark in a future version of "Writing R
Extensions" (including that those "local copies" are not exported
again with exportPattern("^[[:alpha:]]+")).
It is mentioned that they can be exported. The fact that
exportPattern doesn't see them might be a bug.
I don't think it's a bug -- including all imports would usually bring
in way too much.
Not least as most packages import way too much (they import whole
packages unselectively).
Namespace scoping helps a lot with code in packages, but not with code
in examples and demos. I believe that if you want to use maxClique from
RBGL other than in the package's own functions you should either use
RBGL::maxclique or put RBGL on the search path: but I don't think gRbase
should do it for you.
In general re-exporting is probably not such a great idea since the
help system isn't aware of the import/export chain. I don't know if R
CMD check complains if you don't provide your own help page; if it
It does, as Søren found out when he submitted to CRAN.
doesn't it probably should. I also don't recall if we have a
mechanism for such a help page on an import/export to just link to the
real page.
We do, the \link[RBGL]{maxClique} form.
Best,
luke
Duncan
Thanks!
Søren
-----Original Message-----
From: Duncan Murdoch [mailto:murdoch.dun...@gmail.com]
Sent: 25. juni 2013 13:02
To: Søren Højsgaard
Cc: R hELP (r-h...@stat.math.ethz.ch)
Subject: Re: [R] Issue with Imports in NAMESPACE
On 13-06-25 6:50 AM, Søren Højsgaard wrote:
Dear all,
In my gRbase package I have up until now "Depend"-ed on RBGL (from
Bioconductor), but good people have convinced me that I should use
"Import"-it instead because I only use few functions from RBGL.
In DESCRIPTION I therefore now have
Imports: Matrix,RBGL
In NAMESPACE I now have
importFrom(RBGL, maxClique, is.triangulated, separates)
The package compiles without complaints, but I have noticed that if
I start a fresh R-session, then maxClique etc. from RBGL is NOT
available for "interactive use" in my session:
library(gRbase)
maxClique
Error: object 'maxClique' not found
1) Is this as it should be?
2) If yes, is there any other way in which maxClique can be imported
for interactive use without Depend-ing the whole RBGL package?
The importFrom directive effectively makes local copies of those
functions in your package (with the usual caveats that copies aren't
as inefficient as you might think). If you want to export them, you
need to add them to the exports list.
Duncan Murdoch
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Brian D. Ripley, rip...@stats.ox.ac.uk
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
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