tjh.dev
1{ stdenv
2, buildPythonPackage
3, fetchPypi
4, cython
5, lockfile
6, cachecontrol
7, decorator
8, ipython
9, matplotlib
10, natsort
11, numpy
12, pandas
13, scipy
14, hdmedians
15, scikitlearn
16, coverage
17, python
18, isPy3k
19}:
20
21buildPythonPackage rec {
22 version = "0.5.6";
23 pname = "scikit-bio";
24 disabled = !isPy3k;
25
26 src = fetchPypi {
27 inherit pname version;
28 sha256 = "48b73ec53ce0ff2c2e3e05f3cfcf93527c1525a8d3e9dd4ae317b4219c37f0ea";
29 };
30
31 buildInputs = [ cython ];
32 checkInputs = [ coverage ];
33 propagatedBuildInputs = [ lockfile cachecontrol decorator ipython matplotlib natsort numpy pandas scipy hdmedians scikitlearn ];
34
35 # remove on when version > 0.5.4
36 postPatch = ''
37 sed -i "s/numpy >= 1.9.2, < 1.14.0/numpy/" setup.py
38 sed -i "s/pandas >= 0.19.2, < 0.23.0/pandas/" setup.py
39 '';
40
41 # cython package not included for tests
42 doCheck = false;
43
44 checkPhase = ''
45 ${python.interpreter} -m skbio.test
46 '';
47
48 meta = with stdenv.lib; {
49 homepage = "http://scikit-bio.org/";
50 description = "Data structures, algorithms and educational resources for bioinformatics";
51 license = licenses.bsd3;
52 maintainers = [ maintainers.costrouc ];
53 };
54}