diff --git a/.github/workflows/check-bioc.yml b/.github/workflows/check-bioc.yml index bdf38cc..038373d 100644 --- a/.github/workflows/check-bioc.yml +++ b/.github/workflows/check-bioc.yml @@ -131,7 +131,7 @@ jobs: ## Enable installing XML from source if needed brew install libxml2 echo "XML_CONFIG=/usr/local/opt/libxml2/bin/xml2-config" >> $GITHUB_ENV - + message(pandoc --version) ## Required to install magick as noted at ## https://github.com/r-lib/usethis/commit/f1f1e0d10c1ebc75fd4c18fa7e2de4551fd9978f#diff-9bfee71065492f63457918efcd912cf2 brew install imagemagick@6 @@ -144,7 +144,6 @@ jobs: ## Required for tcltk brew install xquartz --cask - brew install Caskroom/cask/mactex - name: Install Windows system dependencies if: runner.os == 'Windows' diff --git a/vignettes/OUTRIDER.Rnw b/vignettes/OUTRIDER.Rnw index 2bd25d9..b1367d9 100644 --- a/vignettes/OUTRIDER.Rnw +++ b/vignettes/OUTRIDER.Rnw @@ -1,6 +1,6 @@ %\VignetteIndexEntry{OUTRIDER: OUTlier in RNA-seq fInDER} %\VignettePackage{OUTRIDER} -%\VignetteEngine{knitr::rmarkdown} +%\VignetteEngine{knitr::knitr} %\VignetteEncoding{UTF-8} \documentclass[11pt]{article}