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
|
{ lib
, buildPythonPackage
, fetchFromGitHub
, fetchpatch
, keras
, numba
, numpy
, pynndescent
, pytestCheckHook
, pythonOlder
, scikit-learn
, scipy
, tensorflow
, tqdm
}:
buildPythonPackage rec {
pname = "umap-learn";
version = "0.5.3";
format = "setuptools";
disabled = pythonOlder "3.7";
src = fetchFromGitHub {
owner = "lmcinnes";
repo = "umap";
rev = version;
hash = "sha256-S2+k7Ec4AxsN6d0GUGnU81oLnBgmlZp8OmUFCNaUJYw=";
};
patches = [
# Fix tests with sklearn>=1.2.0
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/a714b59bd9e2ca2e63312bc3491b2b037a42f2f2.patch";
hash = "sha256-WOSWNN5ewVTV7IEBEA7ZzgZYMZxctF1jAWs9ylKTyLs=";
})
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/c7d05683325589ad432a55e109cacb9d631cfaa9.patch";
hash = "sha256-hE2Svxf7Uja+DbCmTDCnd7mZynjNbC5GUjfqg4ZRO9Y=";
})
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/949abd082524fce8c45dfb147bcd8e8ef49eade3.patch";
hash = "sha256-8/1k8iYeF77FIaUApNtY07auPJkrt3vNRR/HTYRvq+0=";
})
# Fix tests with numpy>=1.24
# https://github.com/lmcinnes/umap/pull/952
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/588e1f724c9f5de528eb1500b0c85a1a609fe947.patch";
hash = "sha256-B50eyMs3CRuzOAq+jxz56XMJPdiUofUxCL0Vqolaafo=";
})
# https://github.com/lmcinnes/umap/pull/1010
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/848396c762c894e666aaf3d0bcfe1e041b529ea6.patch";
hash = "sha256-ir0Pxfr2c0oSuFGXQqHjkj7nzvlpTXCYbaI9qAiLun0=";
})
(fetchpatch {
url = "https://github.com/lmcinnes/umap/commit/30e39938f4627f327223245dfe2c908af6b7e304.patch";
hash = "sha256-7Divrym05wIPa7evgrNYXGm44/EOWG8sIYV8fmtuzJ4=";
})
];
propagatedBuildInputs = [
numba
numpy
pynndescent
scikit-learn
scipy
tqdm
];
nativeCheckInputs = [
keras
pytestCheckHook
tensorflow
];
preCheck = ''
export HOME=$TMPDIR
'';
disabledTests = [
# Plot functionality requires additional packages.
# These test also fail with 'RuntimeError: cannot cache function' error.
"test_umap_plot_testability"
"test_plot_runs_at_all"
# Flaky test. Fails with AssertionError sometimes.
"test_sparse_hellinger"
"test_densmap_trustworthiness_on_iris_supervised"
# tensorflow maybe incompatible? https://github.com/lmcinnes/umap/issues/821
"test_save_load"
];
meta = with lib; {
description = "Uniform Manifold Approximation and Projection";
homepage = "https://github.com/lmcinnes/umap";
license = licenses.bsd3;
maintainers = with maintainers; [ ];
};
}
|