[WARNING] Deprecated: --no-highlight. Use --syntax-highlighting=none instead.


processing file: 13.8-wgbs-dmr-go.Rmd
1/18             
2/18 [setup]     
3/18             
4/18 [packages]  
5/18             
6/18 [parameters]
7/18             
8/18 [inputs]    
9/18             
10/18 [go]        
11/18             
12/18 [enrichment]
13/18             
14/18 [top-terms] 
15/18             
16/18 [dmr-genes] 
17/18             
18/18 [session]   
output file: /mmfs1/gscratch/scrubbed/sr320/claude-138-tmp/13.8-wgbs-dmr-go.knit.md

/usr/bin/pandoc +RTS -K512m -RTS /mmfs1/gscratch/scrubbed/sr320/claude-138-tmp/13.8-wgbs-dmr-go.knit.md --to html4 --from markdown+autolink_bare_uris+tex_math_single_backslash --output /mmfs1/gscratch/scrubbed/sr320/github/project-ostrea-chil/output/13-wgbs/13.8-dmr-go.no-genetic-signal/13.8-wgbs-dmr-go.html --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmarkdown/lua/pagebreak.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmarkdown/lua/latex-div.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmarkdown/lua/table-classes.lua --embed-resources --standalone --variable bs3=TRUE --section-divs --table-of-contents --toc-depth 3 --variable toc_float=1 --variable toc_selectors=h1,h2,h3 --variable toc_collapsed=1 --variable toc_smooth_scroll=1 --variable toc_print=1 --template /usr/local/lib/R/site-library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --variable theme=bootstrap --mathjax --variable 'mathjax-url=https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --include-in-header /tmp/RtmpAE5MPP/rmarkdown-str1feb974f5b1ef0.html 
[WARNING] Deprecated: --no-highlight. Use --syntax-highlighting=none instead.

Output created: output/13-wgbs/13.8-dmr-go.no-genetic-signal/13.8-wgbs-dmr-go.html