pyrox.dev
1{
2 lib,
3 buildPythonPackage,
4 pythonAtLeast,
5 pythonOlder,
6 fetchPypi,
7 bwa,
8 cffi,
9 zlib,
10}:
11
12buildPythonPackage rec {
13 pname = "bwapy";
14 version = "0.1.4";
15 format = "setuptools";
16
17 # uses the removed imp module
18 disabled = pythonOlder "3.6" || pythonAtLeast "3.12";
19
20 src = fetchPypi {
21 inherit pname version;
22 sha256 = "090qwx3vl729zn3a7sksbviyg04kc71gpbm3nd8dalqp673x1npw";
23 };
24 postPatch = ''
25 # replace bundled bwa
26 rm -r bwa/*
27 cp ${bwa}/lib/*.a ${bwa}/include/*.h bwa/
28
29 substituteInPlace setup.py \
30 --replace 'setuptools>=49.2.0' 'setuptools'
31 '';
32
33 buildInputs = [
34 zlib
35 bwa
36 ];
37
38 propagatedBuildInputs = [ cffi ];
39
40 # no tests
41 doCheck = false;
42 pythonImportsCheck = [ "bwapy" ];
43
44 meta = with lib; {
45 homepage = "https://github.com/ACEnglish/bwapy";
46 description = "Python bindings to bwa mem aligner";
47 mainProgram = "bwamempy";
48 license = licenses.mpl20;
49 maintainers = with maintainers; [ ris ];
50 };
51}