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r-modules: update cran and bioc packages

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The last snapshot was 4 months ago (2020-08-19). I also found that I needed newer definitions when I was trying to fix the R arrow package.

This update required a couple of manual changes:

  1. Removing a few deleted packages from default.nix
  2. Renaming the "assert" package to "r_assert" in generate-r-packages.R because "assert" is a keyword in Nix
This commit is contained in:
Tikhon Jelvis
2021-01-02 14:20:29 -08:00
parent da613094f7
commit 70cd2cb336
7 changed files with 3657 additions and 2948 deletions
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6
doc/languages-frameworks/r.section.md
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@@ -105,6 +105,12 @@ 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 bioc-annotation > bioc-annotation-packages.nix.new
mv bioc-annotation-packages.nix.new bioc-annotation-packages.nix
Rscript generate-r-packages.R bioc-experiment > bioc-experiment-packages.nix.new
mv bioc-experiment-packages.nix.new bioc-experiment-packages.nix
```
`generate-r-packages.R <repo>` reads `<repo>-packages.nix`, therefor the renaming.