[R-pkg-devel] (no subject)

Georgi Boshnakov georgi.boshnakov at manchester.ac.uk
Wed Jan 10 09:32:12 CET 2018

Have you put dplyr in 'Suggests'? This should do.

Note that R CMD check runs the code in vignettes twice - once during building and then again the tangled R code file.
So the error may come from the second run. You can check this locally by telling knitr not to clean up after building the vignette and inspecting the generated R file.

I think that in recent versions of knitr there is an option to prevent generating the R file in the first place, so this may solve the problem.


Dr Georgi Boshnakov               tel: (+44) (0)161 306 3684
School of Mathematics             fax: (+44) (0)161 306 3669
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The University of Manchester      email: Georgi.Boshnakov at manchester.ac.uk
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Manchester M13 9PL

-----Original Message-----
From: R-package-devel [mailto:r-package-devel-bounces at r-project.org] On Behalf Of Tim Keitt
Sent: 10 January 2018 05:49
To: R Package Devel
Subject: [R-pkg-devel] (no subject)

I'm seeing:

* checking re-building of vignette outputs ... [3s] WARNING
> Error in re-building vignettes:
> ...
> Quitting from lines 24-60 (strider.Rmd)
> Error: processing vignette 'strider.Rmd' failed with diagnostics:
> package 'dplyr' is not installed for 'arch = x64'
> Execution halted

I'm a little confused because my vignette avoids loading any packages that are not available. Is this because the "eval" option is not available in the version of knitr used by CRAN?

Here's the vignette code:

> ---
> title: "The Strider Package"
> author: "Timothy H. Keitt"
> date: "`r Sys.Date()`"
> output: rmarkdown::html_vignette
> vignette: >
>   %\VignetteIndexEntry{Vignette Title}
>   %\VignetteEngine{knitr::rmarkdown}
>   %\VignetteEncoding{UTF-8}
> ---
> ```{r include=FALSE}
> has_packages = all(c("dplyr", "ggplot2", "microbenchmark") %in%
> rownames(installed.packages()))
> not_has_packages = !has_packages
> ```
> ```{r echo=FALSE, eval=not_has_packages}
> cat("Error: You must install dplyr, ggplot2 and microbenchmark to run 
> the code in this vignette.") ``` ```{r include=FALSE, message=FALSE, 
> warning=FALSE, eval=has_packages}
> library(dplyr)
> library(ggplot2)
> library(microbenchmark)
> ...

This works fine on my computer even if I uninstall dplyr, etc. But it appears that when CRAN tries to rebuild the vignette, the "eval" flag is ignored?

Tricky to reproduce as the exact code used to regenerate the vignette is not part of the output.



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