[R-pkg-devel] Need help with "Lost braces" in R under development checks

[Duncan Murdoch]

On 06/04/2024 11:58 p.m., adinno using pdx.edu wrote:
> 
> Hello,
> 
> I would appreciate help with two build NOTEs:
> 
> 
> First, On the Winbuilder check, the check for R version 4.4.0 alpha
> (2024-04-05 r86346 ucrt) and also under the Debian R Under development
> (unstable) (2024-04-05 r86348) I got a NOTE about a bunch of 'Lost
> braces' in my .Rd files. I am confused because my braces appear to match
> when I count them, and I don't *think* I am runing into an item/itemize
> situation. Here's an example (all the reported issues in this NOTE are
> within \references sections ):
> 
>    checkRd: (-1) LoopAnalyst-package.Rd:14: Lost braces
>      14 |  Dambacher, J. M. and Li, H. W. and Rossignol, P. A. (2002)
>    \doi{10.2307/3071950}{Relevance of community structure in assessing
>    indeterminacy of ecological predictions}. \emph{Ecology},
>    \bold{83(5)},1372--1385.

It appears you are trying to pass two arguments to \doi, but it only 
takes one.  I would have thought that would be fine, but apparently not.

So add a space after "\doi{10.2307/3071950}" and/or remove the braces 
around "{Relevance of community structure in assessing indeterminacy of 
ecological predictions}".

Duncan Murdoch

> 
> Here's the Winbuilder log:
> https://win-builder.r-project.org/incoming_pretest/LoopAnalyst_1.2-7_20240406_215835/Windows/00check.log
> 
> And here's the Debian log:
> https://win-builder.r-project.org/incoming_pretest/LoopAnalyst_1.2-7_20240406_215835/Debian/00check.log
> 
> 
> The second NOTE is about "(possibly) invalid URLs:"
>    URL: https://www.journals.uchicago.edu/doi/10.1086/367590
>      Status: 403
>      Message: Forbidden
> 
> However, when I follow this URL in my browser it appears to link
> appropriately to the intended page. If I use a \doi{10.1086/367590}
> instead of an \href I get the same behavior: check says "(possibly)
> invalid URLs" but https://doi.org/10.1086/367590 appears to work just
> fine in the browser. Not sure what I am doing wrong here.
> 
> 
> 
> Thank you!
> 
> 
> Alexis Dinno
> Associate Professor
> OHSU-PSU School of Public Health
> Pronouns: she/her/hers
> 
> 610-R Vanport Building
> 1810 SW 5th Avenue, Suite 610
> Portland, OR 97201-5202
> 
> p: (503) 725-3076
> f: (503) 725-5100
> e: alexis.dinno using pdx.edu
> 
> Note: I do not use a networked calendar, so meeting dates should be communicated directly via email.
> 
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