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
|
{
lib,
buildPythonPackage,
fetchFromGitHub,
fetchpatch2,
pythonAtLeast,
pythonOlder,
# build-system
hatch-vcs,
hatchling,
# dependencies
numpy,
packaging,
importlib-resources,
typing-extensions,
# optional-dependencies
pydicom,
pillow,
h5py,
scipy,
addBinToPathHook,
gitMinimal,
pytest-doctestplus,
pytest-httpserver,
pytest-xdist,
pytest7CheckHook,
}:
buildPythonPackage (finalAttrs: {
pname = "nibabel";
version = "5.3.3";
pyproject = true;
src = fetchFromGitHub {
owner = "nipy";
repo = "nibabel";
tag = finalAttrs.version;
hash = "sha256-Kdz7kCY5QnA9OiV/FPW1RerjP1GGLn+YaTwFpA0dJAM=";
};
patches = [
(fetchpatch2 {
url = "https://github.com/nipy/nibabel/commit/3f40a3bc0c4bd996734576a15785ad0f769a963a.patch?full_index=1";
hash = "sha256-URsxgP6Sd5IIOX20GtAYtWBWOhw+Hiuhgu1oa8o8NXk=";
})
];
build-system = [
hatch-vcs
hatchling
];
dependencies = [
numpy
packaging
]
++ lib.optionals (pythonOlder "3.12") [ importlib-resources ]
++ lib.optionals (pythonOlder "3.13") [ typing-extensions ];
optional-dependencies = lib.fix (self: {
all = self.dicom ++ self.dicomfs ++ self.minc2 ++ self.spm ++ self.zstd;
dicom = [ pydicom ];
dicomfs = [ pillow ] ++ self.dicom;
minc2 = [ h5py ];
spm = [ scipy ];
zstd = [
# TODO: pyzstd
];
});
nativeCheckInputs = [
addBinToPathHook
gitMinimal
pytest-doctestplus
pytest-httpserver
pytest-xdist
pytest7CheckHook
]
++ finalAttrs.passthru.optional-dependencies.all;
disabledTests = lib.optionals (pythonAtLeast "3.14") [
# https://github.com/nipy/nibabel/issues/1390
"test_deprecator_maker"
];
meta = {
homepage = "https://nipy.org/nibabel";
changelog = "https://github.com/nipy/nibabel/blob/${finalAttrs.version}/Changelog";
description = "Access a multitude of neuroimaging data formats";
license = lib.licenses.mit;
maintainers = with lib.maintainers; [ ashgillman ];
};
})
|
