1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
|
{ stdenv
, lib
, buildPythonPackage
, fetchPypi
, fetchpatch
, isPyPy
, R
, rWrapper
, rPackages
, pcre
, xz
, bzip2
, zlib
, icu
, ipython
, jinja2
, pytz
, pandas
, numpy
, cffi
, tzlocal
, simplegeneric
, pytestCheckHook
, extraRPackages ? []
}:
buildPythonPackage rec {
version = "3.5.15";
format = "setuptools";
pname = "rpy2";
disabled = isPyPy;
src = fetchPypi {
inherit version pname;
hash = "sha256-RE+uSoTcfyM7cOqrCqgTmO4BR8ThrjjdRSTXedbyWys=";
};
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
# https://github.com/rpy2/rpy2/pull/1094
(fetchpatch {
url = "https://github.com/rpy2/rpy2/commit/026d069a008163a62d12567bcb938410d0f9bf7a.diff";
hash = "sha256-x778upSY3zab5EiRyOcsbDpPj7vN/7XzefEs+wvkNg0=";
})
];
postPatch = ''
substituteInPlace 'rpy2/rinterface_lib/embedded.py' --replace '@NIX_R_LIBS_SITE@' "$R_LIBS_SITE"
substituteInPlace 'requirements.txt' --replace 'pytest' ""
'';
buildInputs = [
pcre
xz
bzip2
zlib
icu
] ++ (with rPackages; [
# packages expected by the test framework
ggplot2
dplyr
RSQLite
broom
DBI
dbplyr
hexbin
lazyeval
lme4
tidyr
]) ++ extraRPackages ++ rWrapper.recommendedPackages;
nativeBuildInputs = [
R # needed at setup time to detect R_HOME (alternatively set R_HOME explicitly)
];
propagatedBuildInputs = [
ipython
jinja2
pytz
pandas
numpy
cffi
tzlocal
simplegeneric
];
doCheck = !stdenv.isDarwin;
nativeCheckInputs = [
pytestCheckHook
];
meta = {
homepage = "https://rpy2.github.io/";
description = "Python interface to R";
license = lib.licenses.gpl2Plus;
platforms = lib.platforms.unix;
maintainers = with lib.maintainers; [ joelmo ];
};
}
|
