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
104
105
106
107
108
|
{
stdenv,
lib,
buildPythonPackage,
fetchPypi,
isPyPy,
R,
libdeflate,
rWrapper,
rPackages,
pcre,
xz,
bzip2,
zlib,
icu,
ipython,
jinja2,
pytz,
pandas,
numpy,
cffi,
tzlocal,
simplegeneric,
pytestCheckHook,
extraRPackages ? [ ],
}:
buildPythonPackage rec {
version = "3.5.16";
format = "setuptools";
pname = "rpy2";
disabled = isPyPy;
src = fetchPypi {
inherit version pname;
hash = "sha256-g34vdFg2WKXEwzl2GnP5Q08z75ztPjDGTadWIWXCgBs=";
};
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
];
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
libdeflate
]
++ (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.hostPlatform.isDarwin;
# https://github.com/rpy2/rpy2/issues/1111
disabledTests = [
"test_parse_incomplete_error"
"test_parse_error"
"test_parse_error_when_evaluting"
];
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 ];
};
}
|
