depot/third_party/nixpkgs/pkgs/development/python-modules/biopython/default.nix

58 lines
1.3 KiB
Nix
Raw Normal View History

{
lib,
buildPythonPackage,
fetchPypi,
pythonOlder,
setuptools,
numpy,
}:
buildPythonPackage rec {
pname = "biopython";
version = "1.83";
pyproject = true;
disabled = pythonOlder "3.9";
src = fetchPypi {
inherit pname version;
hash = "sha256-eOa/t43mMDQDev01/nfLbgqeW2Jwa+z3in2SKxbtg/c=";
};
patches = [
# cherry-picked from https://github.com/biopython/biopython/commit/3f9bda7ef44f533dadbaa0de29ac21929bc0b2f1
# fixes SeqXMLIO parser to process all data. remove on next update
./close_parser_on_time.patch
];
build-system = [ setuptools ];
dependencies = [ numpy ];
pythonImportsCheck = [ "Bio" ];
checkPhase = ''
runHook preCheck
export HOME=$(mktemp -d)
cd Tests
python run_tests.py --offline
runHook postCheck
'';
meta = {
description = "Python library for bioinformatics";
longDescription = ''
Biopython is a set of freely available tools for biological computation
written in Python by an international team of developers. It is a
distributed collaborative effort to develop Python libraries and
applications which address the needs of current and future work in
bioinformatics.
'';
homepage = "https://biopython.org/wiki/Documentation";
maintainers = with lib.maintainers; [ luispedro ];
license = lib.licenses.bsd3;
};
}