[Bioc-devel] Error in building vignette for previously stable version

[Mike Smith]

Hi Jakob,

This looks like the same problem a few others have reported.  The latest
advice was to wait for BiocStyle to be updated to reflect changes in
rmarkdown, so you don't need to do anything for now:

https://stat.ethz.ch/pipermail/bioc-devel/2019-December/015870.html

Mike

On Thu, 5 Dec 2019 at 08:59, Jakob Willforss <jakob.willforss using immun.lth.se>
wrote:

> Hi all,
>
>
> I am the developer of NormalyzerDE. A few days ago the release version of
> NormalyzerDE started getting errors in the vignette building (with no
> updates from my side). I saw in the mailing list that others also had
> encountered issues in the vignette. I don't know how widespread the issue
> is though.
>
>
> Is this something I should try to address myself, or just leave it be for
> now?
>
>
> I attach the error below.
>
>
> Best wishes,
>
> Jakob
>
>
> * checking for file ‘NormalyzerDE/DESCRIPTION’ ... OK
> * preparing ‘NormalyzerDE’:
> * checking DESCRIPTION meta-information ... OK
> * installing the package to build vignettes
> * creating vignettes ... ERROR
> --- re-building ‘vignette.Rmd’ using rmarkdown
> Warning in file(con, "r") :
>   file("") only supports open = "w+" and open = "w+b": using the former
> ! LaTeX Error: Command \VerbBar already defined.
>                Or name \end... illegal, see p.192 of the manual.
>
> Error: processing vignette 'vignette.Rmd' failed with diagnostics:
> Failed to compile vignette.tex. See
> https://yihui.name/tinytex/r/#debugging for debugging tips. See
> vignette.log for more info.
> --- failed re-building ‘vignette.Rmd’
>
> SUMMARY: processing the following file failed:
>   ‘vignette.Rmd’
>
> Error: Vignette re-building failed.
> Execution halted
>
>
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>
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