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{ lib
, python
, buildPythonPackage
, fetchpatch
, fetchPypi
, isPyPy
, R
, rWrapper
, rPackages
, pcre
, lzma
, bzip2
, zlib
, icu
, ipython
, jinja2
, pytz
, pandas
, numpy
, cffi
, tzlocal
, simplegeneric
, pytest
, extraRPackages ? []
}:
buildPythonPackage rec {
version = "3.2.6";
pname = "rpy2";
disabled = isPyPy;
src = fetchPypi {
inherit version pname;
sha256 = "1p990cqx3p2pd1rc9wn66m56wahaq8dlr88frz49vb7nv4zw4a8q";
};
buildInputs = [
R
pcre
lzma
bzip2
zlib
icu
# is in the upstream `requires` although it shouldn't be -- this is easier than patching it away
pytest
] ++ (with rPackages; [
# packages expected by the test framework
ggplot2
dplyr
RSQLite
broom
DBI
dbplyr
hexbin
lme4
tidyr
]) ++ extraRPackages ++ rWrapper.recommendedPackages;
checkPhase = ''
pytest
'';
nativeBuildInputs = [
R # needed at setup time to detect R_HOME (alternatively set R_HOME explicitly)
];
patches = [
# R_LIBS_SITE is used by the nix r package to point to the installed R libraries.
# This patch sets R_LIBS_SITE when rpy2 is imported.
./rpy2-3.x-r-libs-site.patch
# pandas 1.x compatibility, already merged upstream
# https://github.com/rpy2/rpy2/issues/636
(fetchpatch {
name = "pandas-1.x.patch";
url = "https://github.com/rpy2/rpy2/commit/fbd060e364b70012e8d26cc74df04ee53f769379.patch";
sha256 = "19rdqydwjmqg25ibmsbx7lggrr9fsyjn283zgvz1wj4iyfjwp1za";
})
];
postPatch = ''
substituteInPlace 'rpy2/rinterface_lib/embedded.py' --replace '@NIX_R_LIBS_SITE@' "$R_LIBS_SITE"
'';
propagatedBuildInputs = [
ipython
jinja2
pytz
pandas
numpy
cffi
tzlocal
simplegeneric
];
checkInputs = [
pytest
];
meta = {
homepage = "http://rpy.sourceforge.net/rpy2";
description = "Python interface to R";
license = lib.licenses.gpl2Plus;
platforms = lib.platforms.unix;
maintainers = with lib.maintainers; [ joelmo ];
};
}
|
