Jiří Moravec

stderr is not empty for a clean run

3

Stderr should be empty for a run, where no error was encountered. Currently, some extra information is printed to stderr. These are not warnings, these are not errors, just messages...

Support for other implementation (eg. kramdown)?

1

Would it be possible to support other implementation and flavours? Most useful would be (I think) GFM and kramdown.

(WIP) Allows the use of = instead of <-

20

This is a tiny change that solves https://github.com/r-lib/lintr/issues/2441. By adding `allow_equal_assignment` parameter to the `assignment_linter` which defaults to `FALSE`, we give an option to use `=` instead of `

When building a database, having it to be in a particular folder with a particular name, and having the content to have a particular name style is annoying and wasteful....

**Story** I am going through the tutorial on how to make one's own database, since I am working with non-standard genome, and found multiple issues with `snpeff.config`. `snpeff` is installed...

`--argument_file` is a parameter shared by many tools. It allows providing arguments in a file instead on a command line, which is very convenient when e.g., merging multiple files using...

In the documentation for the `SelectVariants` tool, it isn't clear what does `-R` do. The documentation for the `-R` is empty, it is set as an optional parameter, but both...

13.2.5 Many Figures In One Subplot -- Would `par(fig)` would be worth mentioning?

1

In https://deepr.gagolewski.com/chapter/250-graphics.html#many-figures-on-one-page-subplots `par(mfrow)` and `par(mfcol)` is shown in detail. `layout()` is mentioned as a more complex alternative. But would `par(fig)` be worth mentioning as well? Personally, I prefer it for...

(HTML) `style_tt()` is very slow

6

I have table with ~ 150 rows and I would like to style some columns. However, when I tried to style a bit too many rows, the `style_tt()` function takes...

Making a report is iterative process. In my report, I have a bunch of images for ~ 300 cells. Every single time I translate the report to HTML, I recreate...