From ripley at stats.ox.ac.uk  Wed Dec  1 09:24:52 2004
From: ripley at stats.ox.ac.uk (Prof Brian Ripley)
Date: Wed Dec  1 09:24:55 2004
Subject: [Rd] \link{} to help pages in Debian
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Message-ID: <Pine.LNX.4.61.0412010803520.20128@gannet.stats>

On Wed, 1 Dec 2004, Iago Mosqueira wrote:

> On Wed, 2004-12-01 at 07:38, Prof Brian Ripley wrote:
>
>> That's guaranteed by the R install scripts, just by following `Writing R
>> Extensions'.  *If* it is not working for you, you are doing something
>> which you are not telling us.
>
> Well, I am simply following as much as my, probably limited,
> understanding allows. I am using a stock Debian install, r-base and
> other packages from debian, and extra packages from CRAN. My package
> follows, as far as I can tell, the manual. If I am doing something else
> I am not conscious of it.
>
>> Ah, but that is not what you actually said (an example of the lack of
>> clarity).
>
> At least that?s what I tried to do.
>
>> I still don't know if you are imagining that there might be a problem that
>> you want to write a package to avoid, or that you have a current problem.
>
> I?ll rather use my imagination for something else. This is a problem
> with my own package, that in fact passes R CMD check.
>
>> If the latter, please start again with the full details: which packages,
>> the commands you used to install them, what happens and what the links in
>> the html file concerned are.
>
> Here we go: The package concerned is my own, which passes check fine. I
> include \code{\link{plot.default}} in a help page. After R CMD INSTALL
> this page gets installed in
>
> /usr/local/lib/R/site-library/mypackage/html/page.html
> and when clicking on the plot.default link, it points to
>
> /usr/local/lib/R/site-library/graphics/html/plotdefault.html
>
> instead of
>
> /usr/lib/R/library/graphics/html/plotdefault.html
>
> where in fact lives.
>
> Both locations appear with .libPaths().
>
> Any other information that can be of help?

I asked for  `what the links in the html file concerned are', so, yes, the 
information I asked for would help.

It should be a relative link like

<code><a href="../../stats/html/optim.html">optim</a></code>

Under Linux, all HTML links are created to the per-session directory and 
not to the original locations.

I think you are expecting to be able to open the installed html file 
directly in a browser and get the links to work.  That's what you have not 
told us you were doing, and you won't find it documented anywhere in the R 
documentation.  (Ironically, it does work under Windows with a separate 
library tree.)

To view R HTML documentation you need to use help.start().  (Otherwise
help(foo, htmlhelp=TRUE) will warn about possible incorrect links.)

Try the documented way

Start R
> help.start()
> help("page")

and the links will be correct, I am pretty sure.

-- 
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

[Rd] \link{} to help pages in Debian
Prof Brian Ripley