[R-pkg-devel] Two problems with fda

[Ivan Krylov]

On Mon, 25 Apr 2022 15:06:28 -0500
Spencer Graves <spencer.graves using effectivedefense.org> wrote:

> GitHub action reports, <<'"pdflatex"' not found>> with 
> vignettes.

No personal experience with GitHub Actions, but have you tried
following the advice by Gábor Csárdi from a few days ago?

https://stat.ethz.ch/pipermail/r-package-devel/2022q2/007970.html

You probably need to declare that your workflow needs tinytex installed
(as described at
<https://github.com/r-lib/actions/tree/v2-branch/setup-tinytex#usage>),
but if you get different advice from more experienced people, follow
that first.

> (1.2) We don't  know what in the vignettes require pdflatex, so we
> cannot easily remove that.

This line sets the output format of the vignette to PDF:

https://github.com/JamesRamsay5/fda/blob/master/vignettes/monotoneFunctions.Rmd#L5

> "fRegress.Rd:325:22: Warning: nested emphasis <code>"

This is a new check, which runs HTML Tidy on the HTML version of the
manual. If you install HTML Tidy on your local machine and a recent
enough version of R (R-4.2 is good enough, and so was R-devel for a few
weeks), you'll get the same check on your local machine, too.

> (2.1) We cannot find any "nested emphasis" to fix in this.
> (2.2) We don't know what the numbers "325:22" mean.

Row and column number in the HTML file, I beleive. Use R CMD Rdconv to
produce an HTML file from man/fRegress.Rd, or use help(fRegress, help =
'html') to see it. If I check the HTML documentation on my machine, my
HTML file ends up slightly different, and the error is found on line
313 instead:

<tr valign="top"><td><code>The <code>fRegress</code> fit object
case:</code></td>

A code tag is apparently not allowed inside another code tag. I guess
this means that \code{} is not allowed inside \item{} any more, since
the original source line for that is:

\item{The \code{fRegress} fit object case:}

-- 
Best regards,
Ivan