-
Notifications
You must be signed in to change notification settings - Fork 47
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
Connor Baker
committed
Feb 6, 2024
1 parent
9b2d847
commit fbe0759
Showing
4 changed files
with
308 additions
and
157 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,93 @@ | ||
| { | ||
| pkgs ? import ./nixpkgs.nix { }, | ||
| RVersion ? "4.2.3", | ||
| }: | ||
| let | ||
| inherit (pkgs) fetchpatch fetchurl; | ||
| inherit (pkgs.lib) lists strings versions; | ||
| in | ||
| # Set enableStrictBarrier to true to build HaskellR against a version of R with | ||
| # the --enable-strict-barrier configure flag enabled for better memory | ||
| # diagnostics. | ||
| (pkgs.R.override { enableStrictBarrier = false; }).overrideAttrs ( | ||
| # Pin R to a specific version to avoid breaking changes in the R API. | ||
| finalAttrs: prevAttrs: { | ||
| version = RVersion; | ||
| src = fetchurl { | ||
| url = "https://cran.r-project.org/src/base/R-${versions.major finalAttrs.version}/R-${finalAttrs.version}.tar.gz"; | ||
| hash = builtins.getAttr RVersion { | ||
| "4.0.0" = "sha256-Br6wKRtWmXhITrDctdIzlmXsdFc3vftOhz56WnVJKUA="; | ||
| "4.0.1" = "sha256-lf4kpNjY+PiIRgyPX+QxHOxlbnoXItIzIYvAOGG8bzI="; | ||
| "4.0.2" = "sha256-07zqs2TaCHZiXkCXgItCUSOV/fQSkvSRWrH9JXwbvnU="; | ||
| "4.0.3" = "sha256-CZg6injV+2vEXSexxV+bpSZfePpUpVwTrmkfh8W7ng0="; | ||
| "4.0.4" = "sha256-Uj8n1pdEoIyPC9Xh5sPYmk2yntmDOIunCWOjzTpKgC4="; | ||
| "4.0.5" = "sha256-Cj7geap3LhMf5UNTEatif8vMtaUMq8VCkub2IEbx/+8="; | ||
| "4.1.0" = "sha256-6OaJWdcoLKFHNg/JZEram9FhureBurFNM7iZmpUYJ4E="; | ||
| "4.1.1" = "sha256-UV4DJldSJX0LcDbzgPguQrRu2Ec/VPJce2ftJbu902Q="; | ||
| "4.1.2" = "sha256-IDYiXp9yB9TOCX5Ulyrs2qi0DX2ZEc0mSR+sWg+rOK8="; | ||
| "4.1.3" = "sha256-Ff9bMzxhCUBgsqUunB2OxVzELdAp45yiKr2qkJUm/tY="; | ||
| "4.2.0" = "sha256-OOq3cZt60JU4jwaqCQxaKyAnkZRd5g0+K7DqsfUJdIg="; | ||
| "4.2.1" = "sha256-TVLbSG0nhI5UYT1O6XetlS7AjOF4B+G1JbEM1ENsZD8="; | ||
| "4.2.2" = "sha256-D/YrQuxRr6VxPK7nxP3noMRZQLo5vvjFyUh/7wyVPfU="; | ||
| "4.2.3" = "sha256-VeSpptQ74xTiwD0CZqb6VESv3OULMDv8O4Kzl5UW4HQ="; | ||
| "4.3.0" = "sha256-RdzEi2zyfTYQIPd/3ho5IJ6Ze4FAKzZjyhwBAFampgk="; | ||
| "4.3.1" = "sha256-jdC/JPECPG9hjDsxc4PSkbSklPQNc7mDrCL/6pnkupk="; | ||
| "4.3.2" = "sha256-s/V2CsLu6AJqPw7vyyW0dyPZeAOO7o6ER2IJTIYMRSo="; | ||
| }; | ||
| }; | ||
|
|
||
| patches = | ||
| prevAttrs.patches or [ ] | ||
| # R: 4.0.4 -> 4.1.0 | ||
| # See https://github.com/NixOS/nixpkgs/commit/9a88197fe7825f486052e3a9eca4a68192335978 | ||
| ++ | ||
| lists.optionals | ||
| ( | ||
| RVersion == "4.1.0" | ||
| && strings.hasInfix "--without-recommended-packages" (prevAttrs.preConfigure or "") | ||
| ) | ||
| [ | ||
| (fetchpatch { | ||
| name = "fix-tests-without-recommended-packages.patch"; | ||
| url = "https://github.com/wch/r-source/commit/7715c67cabe13bb15350cba1a78591bbb76c7bac.patch"; | ||
| # this part of the patch reverts something that was committed after R 4.1.0, so ignore it. | ||
| excludes = [ "tests/Pkgs/xDir/pkg/DESCRIPTION" ]; | ||
| hash = "sha256-iguLndCIuKuCxVCi/4NSu+9RzBx5JyeHx3K6IhpYshQ="; | ||
| }) | ||
| (fetchpatch { | ||
| name = "use-codetools-conditionally.patch"; | ||
| url = "https://github.com/wch/r-source/commit/7543c28b931db386bb254e58995973493f88e30d.patch"; | ||
| hash = "sha256-+yHXB5AItFyQjSxfogxk72DrSDGiBh7OiLYFxou6Xlk="; | ||
| }) | ||
| ] | ||
| # R: 4.1.3 -> 4.2.0 | ||
| # See: https://github.com/NixOS/nixpkgs/commit/5eb9f35c44d30153ff1df2105ed73e148a79a3ee | ||
| ++ lists.optionals (RVersion == "4.2.0" || RVersion == "4.2.1") [ | ||
| (fetchpatch { | ||
| name = "test-reg-packages.patch"; | ||
| url = "https://raw.githubusercontent.com/NixOS/nixpkgs/5eb9f35c44d30153ff1df2105ed73e148a79a3ee/pkgs/applications/science/math/R/test-reg-packages.patch"; | ||
| hash = "sha256-FUzrenAFvD8GL1/RMG8DRRx+ITcEkDkRGKTVyAhyKqA="; | ||
| }) | ||
| ]; | ||
|
|
||
| postPatch = | ||
| prevAttrs.postPatch or "" | ||
| # Nixpkgs ships with curl >= 8.x, which is not compatible with R pre-4.3. However, in the release notes for R | ||
| # 4.3 (https://stat.ethz.ch/pipermail/r-announce/2023/000691.html), it is mentioned that despite the major | ||
| # version change for curl, the API is still compatible with the previous version. Therefore, we can patch the | ||
| # check for curl 7.x. This fixes the following error: | ||
| # error: libcurl >= 7.28.0 library and headers are required with support for https | ||
| # We must patch the ./configure script and the ./m4/R.m4 file to make this work. | ||
| + strings.optionalString (strings.versionOlder RVersion "4.3.0") '' | ||
| substituteInPlace \ | ||
| ./configure \ | ||
| ./m4/R.m4 \ | ||
| --replace-fail \ | ||
| "#if LIBCURL_VERSION_MAJOR > 7" \ | ||
| "#if LIBCURL_VERSION_MAJOR < 7" \ | ||
| --replace-fail \ | ||
| "#elif LIBCURL_VERSION_MAJOR == 7 && LIBCURL_VERSION_MINOR >= 28" \ | ||
| "#elif LIBCURL_VERSION_MAJOR == 7 && LIBCURL_VERSION_MINOR >= 28 || LIBCURL_VERSION_MAJOR == 8" | ||
| ''; | ||
| } | ||
| ) |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,65 @@ | ||
| { | ||
| pkgs ? import ./nixpkgs.nix { }, | ||
| ghcAttr ? "ghc98", | ||
| RVersion ? "4.2.3", | ||
| }: | ||
| let | ||
| inherit (pkgs) | ||
| cabal-install | ||
| cacert | ||
| haskell | ||
| pkg-config | ||
| python3 | ||
| rPackages | ||
| rWrapper | ||
| stdenv | ||
| zeromq | ||
| zlib | ||
| ; | ||
|
|
||
| inherit (pkgs.lib) strings; | ||
|
|
||
| # Set enableStrictBarrier to true to build HaskellR against a version of R with | ||
| # the --enable-strict-barrier configure flag enabled for better memory | ||
| # diagnostics. | ||
| R = builtins.import ./nix/R.nix { inherit pkgs RVersion; }; | ||
|
|
||
| rEnv = rWrapper.override { | ||
| inherit R; | ||
| # ggplot2 is required for ./ihaskell-inline-r/examples/tutorial-ihaskell-inline-r.ipynb | ||
| packages = with rPackages; [ ggplot2 ]; | ||
| }; | ||
|
|
||
| python3Env = python3.withPackages ( | ||
| ps: with ps; [ | ||
| ipython | ||
| jupyter_client | ||
| notebook | ||
| ] | ||
| ); | ||
| in | ||
| haskell.packages.${ghcAttr}.shellFor rec { | ||
| packages = haskellPackages: [ ]; | ||
|
|
||
| nativeBuildInputs = [ pkg-config ]; | ||
|
|
||
| buildInputs = [ | ||
| cabal-install | ||
| cacert | ||
| python3Env | ||
| rEnv | ||
| zeromq | ||
| zlib | ||
| ]; | ||
|
|
||
| # Fixes https://github.com/commercialhaskell/stack/issues/2358 | ||
| LANG = "en_US.UTF-8"; | ||
|
|
||
| # XXX: workaround for https://ghc.haskell.org/trac/ghc/ticket/11042. | ||
| ${(strings.optionalString stdenv.isDarwin "DY") + "LD_LIBRARY_PATH"} = strings.makeLibraryPath ( | ||
| [ ("${R}/lib/R" + (strings.optionalString stdenv.isDarwin "/lib")) ] ++ nativeBuildInputs | ||
| ); | ||
|
|
||
| # Non-NixOS git needs cert | ||
| GIT_SSL_CAINFO = "${cacert}/etc/ssl/certs/ca-bundle.crt"; | ||
| } |
Oops, something went wrong.