On 14/04/2020 6:23 a.m., Konrad Rudolph wrote:
I have a package vignette that reproducibly fails the second time
round in `R CMD check`, in the “checking re-building of vignette
outputs” step.
I have uploaded a small reprex to GitHub [1]. But in a nutshell the
vignette contains a subfolder `foo`, and a file `foo/bar`. And the
`test.rmd` vignette contains the following R code:
newfile = file.path(getwd(), 'foo', 'baz')
writeLines('baz', newfile)
This code causes `R CMD check` to delete the folder `foo` inside
`00_pkg_src/vignettes` after building the vignette, leading to the
following error message further down the line:
Error(s) in re-building vignettes:
...
--- re-building ‘test.rmd’ using rmarkdown
Quitting from lines 8-10 (test.rmd)
Error: processing vignette 'test.rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘test.rmd’
This seems to be due to the cleanup after building vignettes inside
`tools::buildVignette`, because creating a file inside a folder
changes the directory subfolder modification time (on POSIX-like
systems) so the whole folder is deleted in cleanup, rather than just
the file. Can I prevent this?
[1] https://github.com/klmr/vignettetest
Normally the checks don't want you to be writing files outside of the
temp dir, because if a user processed your vignette, it might stomp on
their files. So can't you change that code to
dir.create(tempdir(), 'foo')
newfile <- file.path(tempdir(), 'foo', 'baz')
Duncan Murdoch
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