In rstudio.Rmd there is a reference to https://github.com/rstudio/cheatsheets/raw/master/rstudio-ide.pdf that should be changed to https://github.com/rstudio/cheatsheets/raw/main/rstudio-ide.pdf. That is "master" changed to "main". Looks like the same issue is in why-rmd.Rmd.

Hey @njtierney,

Not that you need to-you could disable that option all together. But you can add an epub or pdf version to your .travis.yml like this example:

https://github.com/tidyverse/style/blob/e2d76307a7ec8feecb4b3da72501687b7f4ba770/.travis.yml#L17-L18

I would offer a PR but I don't know tic and am afraid of screwing up your build!

Alison

The remaining content will be put into an "Appendix" or something similar.

See how the exercises in

https://github.com/njtierney/rmd4sci/tree/master/exercises

Link up to the outline described here:

https://njtierney.github.io/rmd4sci/index.html

cc @PatrickRobotham

Line 28 of pdf-html-word.Rmd is missing the corresponding graphic in /figs.

I've created it for our workshop next week, if you want to use it.

https://github.com/openplantpathology/rmd4sci-melbourne/blob/master/figs/rstudio-knit-button.png

see for example: hadley/r4ds@ce824d0

Say every 2 weeks or something, just to help prevent broken code / bitrot

https://github.com/cboettig/knitcitations by @cboettig is really awesome, it should be in the bib/citations section

https://rstudio.github.io/DT/003-tabletools-buttons.html

Things generated from the rmarkdown output:

• _files/
• _cache/

The compile order of a rmarkdown document

Features like tabsetting in HTML docs

Unanswered questions

There are also some questions that I posed in the book that I haven't quite answered, but I think are valid, but time consuming to answer in full

Why should I use Rmarkdown? I already use (scientific word, Microsoft Word, LaTeX, Word Perfect), and this works fine for me.

Should I write my whole paper in Rmarkdown?

Yes, you should. It might look weird, and not the same as a word doc, but being able to go from start to finish and reproduce this 6 months down the track is a big deal.

Get an error like this?

Package inputenc Error: Unicode char ́ (U+301)(inputenc) not set up for use with LaTeX

This thread has the fix!

https://tex.stackexchange.com/questions/57743/how-to-write-%C3%A4-and-other-umlauts-and-accented-letters-in-bibliography

Basically, change

Author = "...Alonso-Garc{\'\i}"

to

Author = "Alonso-Garc{\'i}"

See the diff for the fix here:

karthik/ddd@53149a9

I'm currently using .demo like so:

## Demo {.demo}

But It would be nice if I could have a different span, like:

\demo{

..content..

}

look at https://github.com/tidyverse/principles to see how they set this up with netlify to avoid adding the CNAME file into gh-pages every single time

The licence appears once in the index as a section and again as a chapter.

Sometimes useful for web links in papers.

https://quarto.org/docs/tools/rstudio.html

Perhaps one option is to have a tabbed code block with either:

|| rmarkdown | quarto ||

Might be a pain, but will be necessary for future proofing.

• Fixing the section numbering (currently when I render the PDF it is all front matter, which means that I get to see the roman numerals go from i to lxxii.

Emily Riederer has a great blog post that beautifully encapsulates the process of writing with rmarkdown:

https://emilyriederer.netlify.com/post/rmarkdown-driven-development/