Hi, Thanks for the links!
Should we wait for the knitr fix to be available through CRAN or edit our DESCRIPTION files to force the Bioc machines to install `knitr` from GitHub? Best, Leo On Mon, Jan 20, 2020 at 12:11 PM Martin Morgan <mtmorgan.b...@gmail.com> wrote: > This seems to be a problem with a recent change to knitr > > https://github.com/Bioconductor/BiocStyle/issues/71 > https://github.com/yihui/knitr/issues/1797 > > Please follow these issues; it looks like it is fixed in the github > repository, but needs to be made available in CRAN for this to be fixed on > our build systems. > > Martin > > On 1/20/20, 12:00 PM, "Bioc-devel on behalf of Zach Shao" < > bioc-devel-boun...@r-project.org on behalf of zach.s...@gmail.com> wrote: > > Hello, > > Not sure what to make of this error > > with building the vingette by bioconductor. > > The figures are all there. > > Did something change with knitr? > > Thank you. > > > Zach > > > ############################################################################## > > ############################################################################## > ### > ### Running command: > ### > ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD build > --keep-empty-dirs --no-resave-data ERSSA > ### > > ############################################################################## > > ############################################################################## > > > * checking for file ‘ERSSA/DESCRIPTION’ ... OK > * preparing ‘ERSSA’: > * checking DESCRIPTION meta-information ... OK > * installing the package to build vignettes > * creating vignettes ... ERROR > --- re-building ‘ERSSA.Rmd’ using rmarkdown > Quitting from lines 45-46 (ERSSA.Rmd) > Error: processing vignette 'ERSSA.Rmd' failed with diagnostics: > Magick: unable to open image > > `/tmp/Rtmp9aQlKg/Rbuild6d1427846a56/ERSSA/vignettes/ERSSA_files/figure-html/unnamed-chunk-2-1.png': > No such file or directory @ error/blob.c/OpenBlob/2701 > --- failed re-building ‘ERSSA.Rmd’ > > SUMMARY: processing the following file failed: > ‘ERSSA.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 > > _______________________________________________ > 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
