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fix: enable full Quarto support when R is activated

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Co-authored-by: dwinkler1 <22460147+dwinkler1@users.noreply.github.com>
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copilot-swe-agent[bot] 2026-04-29 06:25:26 +00:00 • committed by GitHub
commit 31bc081831
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2 changed files with 20 additions and 3 deletions
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21
templates/rde/flake.nix
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@ -185,6 +185,10 @@
julia = config.enabledLanguages.julia; julia = config.enabledLanguages.julia;
python = config.enabledLanguages.python; python = config.enabledLanguages.python;
r = config.enabledLanguages.r; r = config.enabledLanguages.r;
# Enable markdown/quarto plugins whenever R is active so that
# .qmd buffers get proper syntax highlighting and chunk
# recognition via quarto-nvim and otter-nvim.
markdown = config.enabledLanguages.r;
project = true; project = true;
gitPlugins = config.enabledPackages.gitPlugins; gitPlugins = config.enabledPackages.gitPlugins;
background = config.theme.background; background = config.theme.background;
@ -202,11 +206,22 @@
# Development shell configuration # Development shell configuration
devShells = forSystems (system: let devShells = forSystems (system: let
pkgs = import nixpkgs {inherit system;}; pkgs = import nixpkgs {inherit system;};
# When R is enabled, build an overlaid pkgs that includes the R-enhanced
# quarto (with knitr and other R packages baked in via extraRPackages).
# This ensures `quarto render` from the terminal also works correctly.
rPkgs =
if config.enabledLanguages.r
then
import nixpkgs {
inherit system;
overlays = [rixOverlay rOverlay];
}
else pkgs;
# Language-specific packages that should be available in shell # Language-specific packages that should be available in shell
languagePackages = with pkgs; languagePackages =
[] []
++ (if config.enabledLanguages.r then [quarto] else []) ++ (if config.enabledLanguages.r then [rPkgs.quarto] else [])
++ (if config.enabledLanguages.python then [uv] else []) ++ (if config.enabledLanguages.python then [pkgs.uv] else [])
++ (if config.enabledLanguages.julia then [] else []); ++ (if config.enabledLanguages.julia then [] else []);
in { in {
default = pkgs.mkShell { default = pkgs.mkShell {

2
templates/rde/overlays/r.nix
View file

@ -18,8 +18,10 @@ final: prev: let
broom # Tidy model outputs broom # Tidy model outputs
data_table # Fast data manipulation data_table # Fast data manipulation
janitor # Data cleaning helpers janitor # Data cleaning helpers
knitr # Required by Quarto to execute R code chunks
languageserver # LSP for IDE support languageserver # LSP for IDE support
reprex # Reproducible examples reprex # Reproducible examples
rmarkdown # Required by Quarto for R-based rendering
styler # Code formatting styler # Code formatting
tidyverse # Data science ecosystem tidyverse # Data science ecosystem
] ]