Message-ID: <db5123a5-4bb5-07e4-9676-2d0e5ed658d3@gmail.com>
Date: 2020-06-14T13:17:32Z
From: Duncan Murdoch
Subject: [R-pkg-devel] [CRAN-pretest-archived] CRAN submission gwsem 2.0.3
In-Reply-To: <20200613172920.czyt5q4fn5gowbi6-7118@cocoa>
On 13/06/2020 1:29 p.m., Joshua N Pritikin wrote:
>
> I'm trying to include vignettes that take much too long for CRAN check.
>
> At the beginning of the Rmarkdown vignette, I use
>
> is_CRAN <- !identical(Sys.getenv("NOT_CRAN"), "true")
> if (is_CRAN) q()
>
> And then I use
>
> export NOT_CRAN=true
>
> when I build locally. But CRAN check still complains,
You shouldn't call q() from a vignette. Since you're using Rmarkdown,
you can use a variable for the eval chunk option, e.g. put this in your
setup chunk:
knitr::opts_chunk$set(eval = !is_CRAN)
Duncan Murdoch
>
> On Mon, Jun 08, 2020 at 04:24:43PM +0200, ligges at statistik.tu-dortmund.de wrote:
>> Flavor: r-devel-linux-x86_64-debian-gcc
>> Check: re-building of vignette outputs, Result: WARNING
>> Error(s) in re-building vignettes:
>> ...
>> --- re-building 'GeneEnvironmentInteraction.Rmd' using rmarkdown
>> --- re-building 'OneFactorModel.Rmd' using rmarkdown
>> --- re-building 'PostGWASprocessing.Rmd' using rmarkdown
>> --- re-building 'ResidualsModel.Rmd' using rmarkdown
>> --- re-building 'StandardGWAS.Rmd' using rmarkdown
>> --- re-building 'TwoFactorModel.Rmd' using rmarkdown
>> --- re-building 'UserSpecifiedGWASModels.Rmd' using rmarkdown
>> --- re-building 'growth.Rmd' using rmarkdown
>> Error: Vignette re-building failed.
>> Execution halted
>
> What's the correct way to avoid CRAN complaints?
>