mirror of
https://github.com/NixOS/nixpkgs.git
synced 2024-12-25 03:17:13 +00:00
56 lines
1.4 KiB
Markdown
56 lines
1.4 KiB
Markdown
|
R packages
|
||
|
|
==========
|
||
|
|
|
||
|
|
## Installation
|
||
|
|
|
||
|
|
Define an environment for R that contains all the libraries that you'd like to
|
||
|
|
use by adding the following snippet to your $HOME/.nixpkgs/config.nix file:
|
||
|
|
|
||
|
|
```nix
|
||
|
|
{
|
||
|
|
packageOverrides = super: let self = super.pkgs; in
|
||
|
|
{
|
||
|
|
|
||
|
|
rEnv = super.rWrapper.override {
|
||
|
|
packages = with self.rPackages; [
|
||
|
|
devtools
|
||
|
|
ggplot2
|
||
|
|
reshape2
|
||
|
|
yaml
|
||
|
|
optparse
|
||
|
|
];
|
||
|
|
};
|
||
|
|
};
|
||
|
|
}
|
||
|
|
```
|
||
|
|
|
||
|
|
Then you can use `nix-env -f "<nixpkgs>" -iA rEnv` to install it into your user
|
||
|
|
profile. The set of available libraries can be discovered by running the
|
||
|
|
command `nix-env -f "<nixpkgs>" -qaP -A rPackages`. The first column from that
|
||
|
|
output is the name that has to be passed to rWrapper in the code snipped above.
|
||
|
|
|
||
|
|
## Updating the package set
|
||
|
|
|
||
|
|
```bash
|
||
|
|
Rscript generate-r-packages.R cran > cran-packages.nix.new
|
||
|
|
mv cran-packages.nix.new cran-packages.nix
|
||
|
|
|
||
|
|
Rscript generate-r-packages.R bioc > bioc-packages.nix.new
|
||
|
|
mv bioc-packages.nix.new bioc-packages.nix
|
||
|
|
|
||
|
|
Rscript generate-r-packages.R irkernel > irkernel-packages.nix.new
|
||
|
|
mv irkernel-packages.nix.new irkernel-packages.nix
|
||
|
|
```
|
||
|
|
|
||
|
|
`generate-r-packages.R <repo>` reads `<repo>-packages.nix`, therefor the renaming.
|
||
|
|
|
||
|
|
|
||
|
|
## Testing if the Nix-expression could be evaluated
|
||
|
|
|
||
|
|
```bash
|
||
|
|
nix-build test-evaluation.nix --dry-run
|
||
|
|
```
|
||
|
|
|
||
|
|
If this exits fine, the expression is ok. If not, you have to edit `default.nix`
|
||
|
|
|