fall back to knitr instead of rmarkdown, echo pandoc version

gagneurlab · Jul 30, 2024 · 44f1cf4 · 44f1cf4
1 parent fc7e543
commit 44f1cf4
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Showing 2 changed files with 2 additions and 3 deletions.
diff --git 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
@@ -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}