On Thu, May 9, 2019 at 5:12 AM Andrzej Oleś <andrzej.o...@gmail.com> wrote:
> Hi Vince, > > thank you for your feedback. If the vignette compiles fine I wouldn't > worry too much about these warnings. > Hi Andrzej -- yes, the compilation seems fine. Best regards Vince > > The first one "LaTeX Warning: You have requested package > `/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BiocStyle/resources/tex/Bioconductor', > but the package provides `Bioconductor'." is related to the nonstandard > approach of specifying an external LaTeX package by file path rather than > by referring to a package from the local library by name. I haven't really > found a way around this, unfortunately. > > The remaining warnings could be probably fixed by tweaks to > Bioconductor.sty, but as far as I can tell they doesn't seem to harm so I > wouldn't bother to much. > > Cheers, > Andrzej > > On Mon, May 6, 2019 at 9:42 PM Vincent Carey <st...@channing.harvard.edu> > wrote: > >> *I don't often compile vignettes to pdf ... but a recent attempt led to:* >> >> >> *Warning message:* >> >> *LaTeX Warning: You have requested package >> `/Library/Frameworks/R.framework/Vers* >> >> *ions/3.6/Resources/library/BiocStyle/resources/tex/Bioconductor',* >> >> * but the package provides `Bioconductor'.* >> >> *Package geometry Warning: Over-specification in `h'-direction.* >> >> * `width' (384.1122pt) is ignored.* >> >> *Package Fancyhdr Warning: \fancyhead's `E' option without twoside option >> is use* >> >> *less on input line 173. * >> >> >> *Any hints? Must I update tex?* >> >> >> > sessionInfo() >> >> R Under development (unstable) (2019-03-18 r76245) >> >> Platform: x86_64-apple-darwin15.6.0 (64-bit) >> >> Running under: macOS Sierra 10.12.6 >> >> >> Matrix products: default >> >> BLAS: >> >> /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib >> >> LAPACK: >> >> /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib >> >> >> locale: >> >> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 >> >> >> attached base packages: >> >> [1] stats graphics grDevices utils datasets methods base >> >> >> other attached packages: >> >> [1] BiocStyle_2.12.0 rmarkdown_1.12 >> >> >> loaded via a namespace (and not attached): >> >> [1] Rcpp_1.0.1 bookdown_0.9 digest_0.6.18 magrittr_1.5 >> >> >> [5] evaluate_0.13 stringi_1.4.3 startup_0.11.0 tools_3.6.0 >> >> >> [9] stringr_1.4.0 tinytex_0.12 xfun_0.6 yaml_2.2.0 >> >> >> [13] compiler_3.6.0 BiocManager_1.30.4 htmltools_0.3.6 knitr_1.22 >> >> -- >> The information in this e-mail is intended only for t...{{dropped:27}} _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel