pyrox.dev
1{
2 lib,
3 buildPythonPackage,
4 fetchFromGitHub,
5
6 setuptools,
7 cython,
8 oldest-supported-numpy,
9
10 requests,
11 decorator,
12 natsort,
13 numpy,
14 pandas,
15 scipy,
16 h5py,
17 biom-format,
18 statsmodels,
19 patsy,
20
21 python,
22 pytestCheckHook,
23}:
24
25buildPythonPackage rec {
26 pname = "scikit-bio";
27 version = "0.6.3";
28 pyproject = true;
29
30 src = fetchFromGitHub {
31 owner = "scikit-bio";
32 repo = "scikit-bio";
33 tag = version;
34 hash = "sha256-yZa9Kl7+Rk4FLQkZIxa9UIsIGAo6YI4UAiJYbhhPIaI=";
35 };
36
37 build-system = [
38 setuptools
39 cython
40 oldest-supported-numpy
41 ];
42
43 dependencies = [
44 requests
45 decorator
46 natsort
47 numpy
48 pandas
49 scipy
50 h5py
51 biom-format
52 statsmodels
53 patsy
54 ];
55
56 nativeCheckInputs = [ pytestCheckHook ];
57
58 # only the $out dir contains the built cython extensions, so we run the tests inside there
59 pytestFlagsArray = [ "${placeholder "out"}/${python.sitePackages}/skbio" ];
60
61 disabledTestPaths = [
62 # don't know why, but this segfaults
63 "${placeholder "out"}/${python.sitePackages}/skbio/metadata/tests/test_intersection.py"
64 ];
65
66 pythonImportsCheck = [ "skbio" ];
67
68 meta = {
69 homepage = "http://scikit-bio.org/";
70 description = "Data structures, algorithms and educational resources for bioinformatics";
71 license = lib.licenses.bsd3;
72 maintainers = with lib.maintainers; [ tomasajt ];
73 };
74}