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.willfo...@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 > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel