From csardi.gabor at gmail.com  Mon Dec  8 15:40:34 2014
From: csardi.gabor at gmail.com (=?UTF-8?B?R8OhYm9yIENzw6FyZGk=?=)
Date: Mon, 8 Dec 2014 09:40:34 -0500
Subject: [Rd] CRAN packages mis-using \donttest : falsy
In-Reply-To: <E1Xxxaa-0002Jr-S8@gannet.stats.ox.ac.uk>
References: <E1Xxxaa-0002Jr-S8@gannet.stats.ox.ac.uk>
Message-ID: <CABtg=K=CjWEOO-TCDimERxS6a79oL+Kw=BYtFxy4PbHjH_5POQ@mail.gmail.com>

Hi all,

anyone has an idea how I could fix this?

\donttest{
## Set colors from colorspace package with a fallback
col <- try(colorspace::rainbow_hcl(5), silent = TRUE) %||% rainbow(5)
}

The problem is that this makes R CMD check freak out
(http://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/falsy-00check.html)
if the colorspace package is not declared as a dependency. But the
point of the example is to define a meaningful behavior when
colorspace is missing.... so I don't really want to put this into
\dontrun{}...

I vaguely remember that there was also \dontcheck{}, but it is not in
'Writing R extensions', so probably I cannot use it. Or can I? I am
not even sure what the difference is between \donttest and
\dontcheck....

Thanks,
Gabor



On Mon, Dec 8, 2014 at 7:38 AM, Prof Brian Ripley <ripley at stats.ox.ac.uk> wrote:
> This concerns packages using \donttest in their examples.  Such code
> will be run by example() and hence should be runnable ... yours is
> not.
>
> One issue showing is that the examples use undeclared packages: this
> is showing on the CRAN check pages for packages
>
> Distance GLDreg RECA TreePar complmrob disposables egcm enigma
> extrafont falsy ggplot2 imputeYn investr lava prodlim randomForestSRC
> rbison separationplot shiny smoother vcdExtra
>
> With R-devel the \donttest examples can be run by R CMD check
> --run-donttest: we have done that and found failures in packages most
> of those above, plus
>
> BNSP DCGL EIAdata ExtDist FeedbackTS FlexParamCurve IsoGene MGLM
> MsatAllele PRISMA RSurvey RandomFields ReporteRs Rmpi Rssa TR8 VarEff
> aoristic breakage dplyr effects ftsa geocodeHERE ggHorizon ggmap
> ggtern gvcm.cat hyperSpec knitcitation knitr mboost mets mfblock
> mobForest mra nontarget npRmpi nullabor openNLP parfm plsRbeta powerr
> pxweb rcrossref rgbif rsnps season spMC spgwr spocc taxize timereg
> toaster
>
> and warnings in DSpat
>
> In almost all cases there is something obviously wrong with the
> failing example.
>
> Please submit an update to CRAN (using the webform, and following the
> CRAN policies at http://cran.r-project.org/web/packages/policies.html).
> Do NOT reply to this email to submit an update!
>
> There may be other issues that need fixing shown on the package's
> results page.



[Rd] CRAN packages mis-using \donttest : falsy
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