matthew

Here is an[ even simpler reproducible example from section A.4.1](https://yulab-smu.top/treedata-book/faq.html?q=geom_text#faq-text): ``` library(ggtree) ## example tree from https://support.bioconductor.org/p/72398/ tree

update. this works and displays correctly on the html: ``` p

fails with `geom_text2` though, based on the [example from section 7.1 in the treedata book](https://yulab-smu.top/treedata-book/chapter7.html): ``` url

Thank you for the clear and thorough explanation, @rob-p . Now I understand exactly why this is happening. I like your idea for the “throw-away” run for Salmon, and the...

bump! I have the same exact problem as @wolfgangrumpf I installed prokka on ubuntu 20.04.1 LTS via `apt-get install prokka` I tried the commands given by @kapsakcj , i.e. ```...

I just installed via the method outlined in the README file for ubuntu: ``` sudo apt-get install libdatetime-perl libxml-simple-perl libdigest-md5-perl git default-jre bioperl sudo cpan Bio::Perl git clone https://github.com/tseemann/prokka.git $HOME/prokka...

Thank you, @mr-c . Please note thouh, @kapsakcj , that the error persists even with the version of `prokka` from github, as demonstrated above.

Thank you for the helpful explanations, it is clearer now. > I suggest working on a parsnip-adjacent package and ask for review before you finalize it. You certainly don't need...

> Put it in a GH repo and tag me when you have questions 👍 OK, I invited you and @juliasilge to the repo and posted some questions as *issues*...

@juliasilge > No, that is a main difference between how model and engine arguments are handled. OK, thank you. > Do you have a repo you can share for us...